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 | 232,873 | G→T | S361R (AGC→AGA) | mltD ← | membrane‑bound lytic murein transglycosylase D |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 641,714 | C→A | A52S (GCC→TCC) | uspG ← | universal stress protein G |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 987,174 | (A)6→5 | intergenic (‑192/+411) | ompF ← / ← asnS | outer membrane porin F/asparagine‑‑tRNA ligase |
| RA | 994,645 | G→T | A63E (GCG→GAG) | ssuC ← | aliphatic sulfonate ABC transporter membrane subunit |
| RA | 1,197,105 | G→T | S143* (TCA→TAA) | ymfD ← | e14 prophage; putative SAM‑dependent methyltransferase |
| RA | 1,541,844 | G→A | Y249Y (TAC→TAT) | narZ ← | nitrate reductase Z subunit alpha |
| RA | 1,557,074 | C→A | intergenic (+18/+38) | osmC → / ← ddpF | osmotically inducible peroxiredoxin/putative D,D‑dipeptide ABC transporter ATP‑binding subunit DdpF |
| RA | 1,576,247 | C→A | R458L (CGC→CTC) | yddB ← | putative TonB‑dependent receptor |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,699,247 | C→A | intergenic (‑67/‑108) | malI ← / → malX | DNA‑binding transcriptional repressor MalI/PTS enzyme IIBC component MalX |
| 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 | 2,185,170 | G→T | L44L (CTC→CTA) | thiM ← | hydroxyethylthiazole kinase |
| RA | 2,192,725 | C→A | E24D (GAG→GAT) | yehE ← | DUF2574 domain‑containing protein YehE |
| RA | 2,417,593 | C→A | A171A (GCC→GCA) | yfcC → | putative transporter YfcC |
| RA | 2,457,501 | G→T | A553A (GCC→GCA) | fadJ ← | 3‑hydroxyacyl‑CoA dehydrogenase FadJ |
| RA | 3,193,440 | G→T | E193* (GAA→TAA) | yqiK → | protein YqiK |
| 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 | 3,561,162 | G→T | T97T (ACC→ACA) | glpG ← | rhomboid protease |
| RA | 3,761,653 | C→A | M101I (ATG→ATT) | yibF ← | glutathione transferase‑like protein YibF |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,030,712 | C→A | W87L (TGG→TTG) | fadB ← | dodecenoyl‑CoA delta‑isomerase, enoyl‑CoA hydratase, 3‑hydroxybutyryl‑CoA epimerase, 3‑hydroxyacyl‑CoA dehydrogenase |
| RA | 4,200,061 | T→C | G186G (GGT→GGC) | yjaG → | conserved protein YjaG |
| RA | 4,253,014 | (A)7→6 | intergenic (+11/‑2) | ubiC → / → ubiA | chorismate lyase/4‑hydroxybenzoate octaprenyltransferase |
| 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 | 4,424,472 | G→T | intergenic (+86/+44) | ulaF → / ← yjfY | L‑ribulose‑5‑phosphate 4‑epimerase UlaF/DUF1471 domain‑containing protein YjfY |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102970 | 3104061 | 1092 | 46 [45] | [45] 46 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423752–3424234 | 3424527–3424238 | 5–776 | 46 [45] | [45] 46 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 49 (0.300) | 203 (1.400) | 92/244 | 0.1 | 84.2% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 33 (0.230) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 49 (0.300) | 131 (0.910) | 71/244 | 0.3 | 77.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 33 (0.230) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 247 (1.550) | 107/268 | 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 = | 235 (1.440) | 256 (1.580) | 98/274 | 0.1 | 68.5% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 2 (0.010) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 173 (1.060) | 80/276 | 0.3 | 98.9% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.010) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||