mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 323,187 | G→T | D284Y (GAT→TAT) | ykgF → | putative amino acid dehydrogenase with NAD(P)‑binding domain and ferridoxin‑like domain |
| RA | 335,274 | A→G | intergenic (‑252/‑6) | yahC ← / → yahD | uncharacterized protein YahC/ankyrin repeat‑containing protein YahD |
| MC JC | 471,472 | Δ186 bp | coding (837‑1022/1782 nt) | mdlB → | ABC transporter family protein MdlB |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,548,920 | G→T | S507I (AGC→ATC) | fdnG → | formate dehydrogenase N subunit alpha |
| RA | 1,676,155 | G→T | A69E (GCA→GAA) | pntB ← | pyridine nucleotide transhydrogenase subunit beta |
| 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 | |
| JC JC | 2,104,153 | IS1 (–) +9 bp | coding (349‑357/1119 nt) | wbbK ← | putative lipopolysaccharide biosynthesis protein |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,312,350 | C→A | D134Y (GAC→TAC) | ompC ← | outer membrane porin C |
| RA | 2,488,221 | G→T | P316P (CCC→CCA) | yfdE ← | acetyl‑CoA:oxalate CoA‑transferase |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,412,281 | C→A | A210D (GCC→GAC) | yhdJ → | DNA adenine methyltransferase |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,804,999 | (T)7→6 | coding (118/936 nt) | waaS ← | lipopolysaccharide core biosynthesis protein |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,018,798 | C→A | intergenic (+38/‑57) | rmuC → / → ubiE | putative recombination limiting protein RmuC/bifunctional 2‑octaprenyl‑6‑methoxy‑1,4‑benzoquinone methylase and S‑adenosylmethionine:2‑DMK methyltransferase |
| MC JC | 4,024,545 | Δ12 bp | coding (266‑277/489 nt) | rfaH ← | transcription antiterminator RfaH |
| RA | 4,028,308 | C→A | A155A (GCG→GCT) | fadA ← | 3‑ketoacyl‑CoA thiolase |
| 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 | 4,307,447 | A→T | L118Q (CTG→CAG) | alsK ← | D‑allose kinase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102983 | 3104081 | 1099 | 13 [11] | [12] 14 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423770–3424234 | 3424525–3424238 | 5–756 | 14 [10] | [10] 13 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 39 (0.840) | 13 (0.320) | 12/246 | 2.2 | 26.4% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 38 (0.920) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 39 (0.840) | 11 (0.270) | 11/246 | 2.4 | 23.3% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 38 (0.920) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 66 (1.460) | 43/270 | 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 = | 60 (1.290) | 86 (1.860) | 48/276 | 0.0 | 74.3% | 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) | 49 (1.050) | 35/278 | 0.3 | 96.1% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.040) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||