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 | 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 | 1,391,408 | C→A | R149L (CGT→CTT) | ycjY ← | putative hydrolase YcjY |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,723,961 | G→T | G614V (GGC→GTC) | ydhK → | putative transporter YdhK |
| RA | 1,769,355 | C→A | G94G (GGC→GGA) | ydiK → | putative transporter YdiK |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,907,522 | G→T | P24T (CCT→ACT) | yobF ← | DUF2527 domain‑containing protein YobF |
| 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 | 2,564,482 | T→C | intergenic (+110/‑41) | yffR → / → yffS | CPZ‑55 prophage; uncharacterized protein YffR/CPZ‑55 prophage; uncharacterized protein YffS |
| RA | 3,174,218 | G→T | S393R (AGC→AGA) | parE ← | DNA topoisomerase IV subunit B |
| 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 | 3,666,866 | C→A | D239Y (GAC→TAC) | gadA ← | glutamate decarboxylase A |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,916,862 | A→G | S172P (TCC→CCC) | atpD ← | ATP synthase F1 complex subunit beta |
| RA | 4,132,505 | C→A | intergenic (+238/‑111) | metL → / → metF | fused aspartate kinase/homoserine dehydrogenase 2/5,10‑methylenetetrahydrofolate reductase |
| 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 | 4,377,990 | G→T | P319T (CCC→ACC) | ampC ← | beta‑lactamase |
| RA | 4,452,576 | G→T | M2I (ATG→ATT) | ytfT → | galactofuranose ABC transporter putative membrane subunit YtfT |
| RA | 4,491,440 | C→A | A362A (GCG→GCT) | idnT ← | L‑idonate/5‑ketogluconate/gluconate transporter |
| RA | 4,505,167 | C→A | G370G (GGC→GGA) | yjhB → | putative sialic acid transporter |
| RA | 4,606,962 | C→A | G247C (GGT→TGT) | rsmC ← | 16S rRNA m(2)G1207 methyltransferase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196245 | 1211439 | 15195 | 65 [45] | [48] 49 | [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 | 3102991 | 3104086 | 1096 | 51 [45] | [48] 51 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423768–3424234 | 3424525–3424238 | 5–758 | 49 [45] | [31] 56 | [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) | 86 (0.570) | 52/266 | 1.2 | 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 = | 143 (0.920) | 158 (1.020) | 77/272 | 0.3 | 68.1% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 6 (0.040) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 182 (1.170) | 78/274 | 0.3 | 97.9% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 4 (0.030) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||