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 | 281,830 | C→A | A52S (GCT→TCT) | yagA ← | CP4‑6 prophage; integrase core domain‑containing protein YagA |
| RA | 298,096 | C→A | A211S (GCC→TCC) | paoD ← | molybdenum cofactor insertion chaperone for PaoABC |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,061,902 | C→A | A35E (GCG→GAG) | torD → | trimethylamine‑N‑oxide reductase‑specific chaperone |
| RA | 1,291,179 | G→T | S313I (AGC→ATC) | rssB → | regulator of RpoS |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,368,220 | G→T | A48S (GCG→TCG) | pspA → | phage shock protein A |
| 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 | 2,294,130 | G→T | L259M (CTG→ATG) | ccmF ← | holocytochrome c synthetase membrane subunit CcmF |
| RA | 2,367,561 | +G | coding (491/969 nt) | arnC → | undecaprenyl‑phosphate 4‑deoxy‑4‑formamido‑L‑arabinose transferase |
| RA | 2,376,989 | Δ1 bp | coding (604/759 nt) | menH ← | 2‑succinyl‑6‑hydroxy‑2, 4‑cyclohexadiene‑1‑carboxylate synthase |
| RA | 2,651,105 | C→A | D395Y (GAT→TAT) | yfhM ← | alpha2‑macroglobulin |
| RA | 2,771,942 | G→T | S71S (TCC→TCA) | yfjU ← | CP4‑57 prophage; ArsC family protein YfjU |
| RA | 2,933,154 | G→T | Q179K (CAA→AAA) | fucA ← | L‑fuculose‑phosphate aldolase |
| RA | 2,940,353 | C→T | W297* (TGG→TGA) | rlmM ← | 23S rRNA 2'‑O‑ribose C2498 methyltransferase |
| RA | 3,089,446 | C→A | T388N (ACC→AAC) | galP → | galactose:H(+) symporter |
| RA | 3,337,667 | C→A | A75A (GCG→GCT) | mlaC ← | intermembrane phospholipid transport system ‑ periplasmic binding protein |
| 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 | 3,766,621 | G→T | L95F (TTG→TTT) | yibA → | putative lyase containing HEAT‑repeat |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,194,562 | C→A | G513V (GGG→GTG) | thiC ← | phosphomethylpyrimidine synthase |
| 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 | 4,374,924 | C→A | R245L (CGG→CTG) | epmB ← | lysine 2,3‑aminomutase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 433006 | 433076 | 71 | 3 [1] | [2] 3 | nrdR | NrdR transcriptional repressor |
| * | * | ÷ | NC_000913 | 3103015 | 3104043 | 1029 | 4 [2] | [0] 4 | mutY | adenine DNA glycosylase |
| * | * | ÷ | NC_000913 | 3423776–3424231 | 3424525–3424239 | 9–750 | 3 [1] | [2] 4 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 6 (0.270) | 28 (1.430) | 26/246 | 0.0 | 82.0% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 7 (0.360) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 6 (0.270) | 18 (0.920) | 16/246 | 0.3 | 74.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 7 (0.360) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 3363001 = | 41 (1.850) | 45 (2.040) | 28/276 | 0.0 | 68.9% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 0 (0.000) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 24 (1.080) | 18/278 | 0.3 | 92.3% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.090) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||