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 | 154,864 | IS5 (+) +4 bp | coding (560‑563/2598 nt) | htrE ← | putative fimbrial usher protein HtrE |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 559,427 | G→T | A152S (GCG→TCG) | sfmC → | putative fimbrial chaperone SfmC |
| RA | 656,302 | C→A | intergenic (‑334/‑255) | dcuC ← / → pagP | anaerobic C4‑dicarboxylate transporter DcuC/Lipid IVA palmitoyltransferase |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 975,824 | C→A | A68E (GCA→GAA) | mukE → | chromosome partitioning protein MukE |
| RA | 1,045,723 | C→A | Q27H (CAG→CAT) | gfcE ← | putative exopolysaccharide export lipoprotein GfcE |
| JC | 1,198,505 | (AATGATGA)6→7 | intergenic (‑268/‑190) | ymfE ← / → lit | e14 prophage; uncharacterized protein YmfE/e14 prophage; cell death peptidase Lit |
| RA | 1,488,673 | G→T | G148C (GGC→TGC) | aldA → | aldehyde dehydrogenase A |
| RA | 1,552,032 | C→A | intergenic (+41/+366) | fdnI → / ← yddM | formate dehydrogenase N subunit gamma/putative DNA‑binding transcriptional regulator YddM |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,720,688 | T→C | D46G (GAC→GGC) | slyA ← | DNA‑binding transcriptional dual regulator SlyA |
| 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 | 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 | 4,261,710 | 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 | 4,443,760 | A→C | D460A (GAC→GCC) | tamA → | translocation and assembly module subunit TamA |
| RA | 4,631,375 | G→T | A215S (GCC→TCC) | slt → | soluble lytic murein transglycosylase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102964 | 3104061 | 1098 | 51 [50] | [49] 51 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423766–3424234 | 3424523–3424238 | 5–758 | 51 [49] | [40] 60 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| * | * | ÷ | NC_000913 | 3944157–3945567 | 3946841–3946693 | 1127–2685 | 52 [49] | [49] 51 | [rrlC]–rrfC | [rrlC],rrfC |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 196 (1.140) | 100 (0.660) | 61/244 | 0.7 | 38.5% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 146 (0.960) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 196 (1.140) | 51 (0.330) | 37/244 | 2.2 | 24.2% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 146 (0.960) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 228 (1.360) | 103/268 | 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 = | 220 (1.280) | 282 (1.650) | 92/274 | 0.2 | 71.6% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 5 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 219 (1.270) | 96/276 | 0.1 | 96.0% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 9 (0.050) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||