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] | |
| JC JC | 751,781 | IS5 (–) +4 bp | coding (386‑389/2448 nt) | ybgQ ← | putative fimbrial usher protein YbgQ |
| RA | 871,397 | C→A | A144E (GCA→GAA) | gsiC → | glutathione ABC transporter membrane subunit GsiC |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,106,111 | C→A | Q98K (CAG→AAG) | ymdB → | 2'‑O‑acetyl‑ADP‑ribose deacetylase, regulator of RNase III activity |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,556,991 | G→T | A123S (GCA→TCA) | osmC → | osmotically inducible peroxiredoxin |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,841,612 | G→T | P41P (CCG→CCT) | nudG → | 5‑hydroxy‑CTP diphosphatase |
| 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 | 2,156,198 | G→A | M312I (ATG→ATA) | mdtB → | multidrug efflux pump RND permease subunit MdtB |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,425,164 | C→A | A24S (GCG→TCG) | hisM ← | lysine/arginine/ornithine ABC transporter/histidine ABC transporter, membrane subunit HisM |
| RA | 2,449,195 | G→T | intergenic (+38/+33) | smrB → / ← yfcO | putative endonuclease SmrB/DUF2544 domain‑containing protein YfcO |
| RA | 3,060,298 | G→T | T182T (ACG→ACT) | argP → | DNA‑binding transcriptional dual regulator ArgP |
| RA | 3,172,161 | C→A | M17I (ATG→ATT) | ygiZ ← | conserved inner membrane protein YgiZ |
| RA | 3,226,578 | C→A | F115L (TTC→TTA) | ygjI → | putative transporter YgjI |
| RA | 3,335,704 | G→T | A264E (GCG→GAG) | murA ← | UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,503,593 | G→T | D143Y (GAC→TAC) | frlD → | fructoselysine 6‑kinase |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,739,564 | C→A | intergenic (+37/‑141) | malS → / → avtA | alpha‑amylase/valine‑‑pyruvate aminotransferase |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,877,579 | G→T | intergenic (‑114/+126) | yidB ← / ← gyrB | conserved protein YidB/DNA gyrase subunit B |
| RA | 4,149,522 | C→A | Q248H (CAG→CAT) | eptC ← | phosphoethanolamine transferase EptC |
| 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 | 4,441,591 | A→G | Y196H (TAT→CAT) | msrA ← | methionine sulfoxide reductase A |
| RA | 4,466,730 | G→T | Q173K (CAG→AAG) | treR ← | DNA‑binding transcriptional repressor TreR |
| RA | 4,592,967 | C→A | S437R (AGC→AGA) | tsr → | methyl‑accepting chemotaxis protein Tsr |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102979 | 3104051 | 1073 | 7 [6] | [5] 10 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423770–3424230 | 3424525–3424242 | 13–756 | 9 [6] | [6] 7 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 374921 = | NA (NA) | 3 (0.120) | 3/192 | 2.9 | NA | intergenic (+40/‑538) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377531 = | NA (NA) | intergenic (+220/+4) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 375248 = | NA (NA) | 17 (0.550) | 7/240 | 2.2 | NA | noncoding (15/34 nt) | other | REP31g |
| ? | NC_000913 | 377507 = | NA (NA) | noncoding (16/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | 1207790 = | 6 (0.170) | 40 (1.270) | 33/246 | 0.1 | 82.2% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 12 (0.380) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 6 (0.170) | 22 (0.700) | 17/246 | 0.7 | 71.8% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 12 (0.380) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 3363001 = | 58 (1.630) | 69 (1.950) | 53/276 | 0.0 | 69.8% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 2 (0.060) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 59 (1.660) | 40/278 | 0.0 | 98.3% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 1 (0.030) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||