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 | 175,435 | C→A | P110Q (CCG→CAG) | clcA → | chloride:H(+) antiporter ClcA |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 369,235 | A→C | T209P (ACG→CCG) | mhpA → | putative 3‑(3‑hydroxyphenyl)propanoate/3‑hydroxycinnamate hydroxylase |
| RA | 659,594 | C→A | G208V (GGT→GTT) | lipA ← | lipoyl synthase |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 894,200 | G→T | G139G (GGG→GGT) | potF → | putrescine ABC transporter periplasmic binding protein |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,371,939 | G→T | A11S (GCA→TCA) | ycjN → | putative ABC transporter periplasmic binding protein YcjN |
| RA | 1,643,427 | C→A | G293V (GGG→GTG) | ydfU ← | Qin prophage; protein YdfU |
| 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 | 2,879,493 | C→A | A94S (GCG→TCG) | cas1 ← | multifunctional nuclease Cas1 |
| RA | 3,176,992 | G→T | R97S (CGC→AGC) | yqiB ← | DUF1249 domain‑containing protein YqiB |
| RA | 3,341,904 | C→A | G213G (GGC→GGA) | kdsD → | D‑arabinose 5‑phosphate isomerase KdsD |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,393,908 | C→A | G784V (GGT→GTT) | yhdP ← | AsmA2 domain‑containing protein |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,753,977 | G→T | S41R (AGC→AGA) | yiaV ← | putative membrane fusion protein |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,110,455 | G→T | E176* (GAA→TAA) | cdh → | CDP‑diacylglycerol diphosphatase |
| RA | 4,168,110 | C→A | noncoding (1452/1542 nt) | rrsB → | 16S ribosomal RNA |
| 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 | 4,448,543 | G→T | E33* (GAG→TAG) | chpS → | ChpS antitoxin of the ChpB‑ChpS toxin‑antitoxin system |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102993 | 3104052 | 1060 | 15 [10] | [13] 15 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423770–3424234 | 3424525–3424238 | 5–756 | 15 [14] | [11] 15 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 17 (0.260) | 78 (1.330) | 58/244 | 0.0 | 88.1% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 6 (0.100) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 17 (0.260) | 50 (0.850) | 37/244 | 0.4 | 82.6% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 6 (0.100) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 3363001 = | 99 (1.490) | 96 (1.460) | 56/274 | 0.1 | 65.7% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 2 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 71 (1.070) | 50/276 | 0.2 | 92.2% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 6 (0.090) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||