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 | 18,802 | C→A | L30I (CTT→ATT) | nhaR → | DNA‑binding transcriptional activator NhaR |
| RA | 73,943 | C→A | R193R (CGG→CGT) | thiP ← | thiamine ABC transporter membrane subunit |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 457,461 | G→T | L12F (TTG→TTT) | clpX → | ATP‑dependent Clp protease ATP‑binding subunit ClpX |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,477,061 | C→A | R640S (CGT→AGT) | ydbD → | DUF2773 domain‑containing protein YdbD |
| RA | 1,610,150 | G→C | G177G (GGC→GGG) | uxaB ← | tagaturonate reductase |
| JC JC | 1,652,297 | IS2 (–) +5 bp | pseudogene (786‑790/1197 nt) | intQ → | Qin prophage; putative defective integrase |
| 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 | 2,230,190 | G→T | R66S (CGC→AGC) | dusC ← | tRNA‑dihydrouridine(16) synthase |
| RA | 2,299,100 | A→T | I160N (ATC→AAC) | napH ← | ferredoxin‑type protein NapH |
| RA | 3,145,897 | G→T | P122Q (CCA→CAA) | hybO ← | hydrogenase 2 small subunit |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,370,163 | G→T | S63* (TCG→TAG) | nanK ← | N‑acetylmannosamine kinase |
| RA | 3,414,536 | C→A | L225M (CTG→ATG) | acrE → | multidrug efflux pump membrane fusion lipoprotein AcrE |
| RA | 3,542,507 | C→A | L701M (CTG→ATG) | feoB → | Fe(2(+)) transporter FeoB |
| 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 | 3,966,245 | G→T | Q5H (CAG→CAT) | rhoL → | rho operon leader peptide |
| RA | 4,085,782 | C→A | G14V (GGC→GTC) | fdoG ← | formate dehydrogenase O subunit alpha |
| RA | 4,248,690 | C→A | F240L (TTC→TTA) | lamB → | maltose outer membrane channel/phage lambda receptor protein |
| 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 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102985 | 3104055 | 1071 | 22 [21] | [21] 22 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423768–3424234 | 3424538–3424238 | 5–771 | 22 [20] | [21] 22 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 61 (0.740) | 29 (0.400) | 25/246 | 1.5 | 29.0% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 88 (1.200) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 61 (0.740) | 18 (0.250) | 15/246 | 2.9 | 20.2% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 88 (1.200) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 110 (1.370) | 68/270 | 0.0 | 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 = | 152 (1.840) | 131 (1.600) | 59/276 | 0.1 | 63.3% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 1 (0.010) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 107 (1.290) | 61/278 | 0.1 | 93.9% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 7 (0.080) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||