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 | 295,424 | G→T | R52R (CGC→CGA) | yagN ← | CP4‑6 prophage; protein YagN |
| RA | 311,480 | (T)8→7 | intergenic (‑144/‑632) | ecpR ← / → ykgL | DNA‑binding transcriptional dual regulator MatA/uncharacterized protein YkgL |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,196,220 | C→T | H366H (CAC→CAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,232 | C→T | T370T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,245 | T→C | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,247 | A→G | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,231,752 | G→T | R189R (CGG→CGT) | umuC → | DNA polymerase V catalytic protein |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,839,083 | G→T | A113S (GCC→TCC) | ynjD → | putative ABC transporter ATP‑binding protein YnjD |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,972,935 | G→T | G135G (GGC→GGA) | cheW ← | chemotaxis protein CheW |
| 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 | 2,188,569 | C→A | G781V (GGC→GTC) | yehB ← | putative fimbrial usher protein YehB |
| RA | 2,218,525 | C→A | A11A (GCG→GCT) | yehY ← | glycine betaine ABC transporter membrane subunit YehY |
| RA | 2,892,508 | G→T | V99F (GTT→TTT) | queD → | 6‑carboxy‑5,6,7,8‑tetrahydropterin synthase |
| JC | 3,306,862 | (GTACGACCG)1→2 | coding (999/1890 nt) | deaD ← | ATP‑dependent RNA helicase DeaD |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,401,914 | A→G | R473R (CGT→CGC) | csrD ← | regulator of CsrB and CsrC decay |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,708,837 | C→A | E547* (GAA→TAA) | eptB ← | Kdo2‑lipid A phosphoethanolamine 7''‑transferase |
| 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 | 4,446,409 | G→T | E766D (GAG→GAT) | tamB → | translocation and assembly module subunit TamB |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196270 | 1211431 | 15162 | 37 [33] | [31] 38 | [icd]–[icdC] | [icd],ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,oweE,ymfN,aaaE,ymfR,beeE,jayE,ymfQ,ycfK,tfaP,tfaE,stfE,pinE,mcrA,[icdC] |
| * | * | ÷ | NC_000913 | 3102971 | 3104078 | 1108 | 35 [33] | [33] 35 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423770–3424544 | 3424544 | 1–775 | 38 [31] | [33] 35 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 199 (1.600) | 100/268 | 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 = | 216 (1.690) | 198 (1.560) | 79/274 | 0.1 | 64.3% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 5 (0.040) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 150 (1.170) | 74/276 | 0.2 | 98.0% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 3 (0.020) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||