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 | 86,696 | A→C | Q356P (CAG→CCG) | ilvI → | acetolactate synthase/acetohydroxybutanoate synthase, catalytic subunit |
| RA | 138,729 | C→A | intergenic (+96/+106) | cueO → / ← gcd | cuprous oxidase/multicopper oxidase with role in copper homeostasis/quinoprotein glucose dehydrogenase |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 302,646 | A→C | intergenic (‑73/‑345) | paoA ← / → yagU | aldehyde dehydrogenase, Fe‑S subunit/inner membrane protein that contributes to acid resistance |
| RA | 569,522 | G→T | R207S (AGG→AGT) | ybcK → | DLP12 prophage; putative recombinase |
| RA | 626,126 | (A)5→4 | coding (57/1611 nt) | entE → | 2,3‑dihydroxybenzoate‑AMP ligase |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,458,851 | G→T | Q196H (CAG→CAT) | paaG → | putative ring 1,2‑epoxyphenylacetyl‑CoA isomerase (oxepin‑CoA forming) |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,715,754 | G→T | Q46K (CAA→AAA) | pdxY ← | pyridoxal kinase 2 |
| 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 | 2,169,469 | C→A | S253* (TCG→TAG) | yegS → | lipid kinase |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,344,513 | C→A | intergenic (‑344/+81) | yfaL ← / ← ypaB | putative autotransporter adhesin YfaL/protein YpaB |
| RA | 2,407,542 | G→A | intergenic (‑901/‑19) | lrhA ← / → alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA |
| RA | 2,613,693 | A→C | L598L (CTA→CTC) | hyfR → | DNA‑binding transcriptional activator HyfR |
| RA | 2,920,925 | G→T | F392L (TTC→TTA) | gudP ← | galactarate/glucarate/glycerate transporter GudP |
| 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 | 3,730,681 | G→T | P29T (CCC→ACC) | xylA ← | xylose isomerase |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,866,031 | G→T | G81G (GGC→GGA) | yidE ← | putative transport protein YidE |
| RA | 3,963,423 | C→A | L269L (CTG→CTT) | gpp ← | guanosine‑5'‑triphosphate,3'‑diphosphate phosphatase |
| RA | 4,091,890 | G→T | F159L (TTC→TTA) | frvB ← | putative PTS enzyme IIBC component FrvB |
| RA | 4,113,614 | G→T | V108F (GTC→TTC) | uspD → | universal stress protein D |
| 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 | 4,609,294 | G→T | E217* (GAA→TAA) | yjjG → | pyrimidine nucleotidase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102962 | 3104055 | 1094 | 48 [47] | [47] 49 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423766–3424234 | 3424531–3424238 | 5–766 | 50 [45] | [47] 51 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 86 (0.490) | 178 (1.140) | 84/244 | 0.1 | 71.0% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 69 (0.440) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 86 (0.490) | 78 (0.500) | 48/244 | 1.2 | 51.8% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 69 (0.440) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 277 (1.620) | 104/268 | 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 = | 355 (2.020) | 335 (1.920) | 100/274 | 0.1 | 65.3% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 4 (0.020) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 233 (1.320) | 95/276 | 0.1 | 97.1% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 7 (0.040) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||