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 | 199,188 | C→A | R421S (CGC→AGC) | bamA → | outer membrane protein assembly factor BamA |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 339,025 | C→A | A234E (GCG→GAG) | yahG → | DUF1116 domain‑containing protein YahG |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,212,088 | (C)8→9 | intergenic (‑85/+172) | iraM ← / ← ymgK | anti‑adaptor protein IraM, inhibitor of sigma(S) proteolysis/protein YmgK |
| RA | 1,498,390 | C→A | P512Q (CCG→CAG) | opgD → | glucan biosynthesis protein D |
| RA | 1,528,418 | C→A | pseudogene (529/2049 nt) | rhsE → | RhsE protein in rhs element |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,881,732 | C→A | A26A (GCG→GCT) | dmlR ← | DNA‑binding transcriptional regulator DmlR |
| 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 | 2,374,861 | C→A | G48V (GGG→GTG) | menE ← | o‑succinylbenzoate‑‑CoA ligase |
| RA | 2,945,626 | G→T | Q73K (CAA→AAA) | tcdA ← | tRNA threonylcarbamoyladenosine dehydratase |
| RA | 2,952,852 | G→T | P1051Q (CCG→CAG) | recB ← | exodeoxyribonuclease V subunit RecB |
| RA | 3,068,651 | G→T | A53D (GCC→GAC) | argO ← | L‑arginine exporter |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,384,420 | C→A | intergenic (‑152/‑283) | mdh ← / → argR | malate dehydrogenase/DNA‑binding transcriptional dual regulator ArgR |
| RA | 3,464,116 | C→A | S65S (TCC→TCA) | gspL → | Type II secretion system protein GspL |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,824,905 | G→T | A131S (GCC→TCC) | trmH → | tRNA (Gm18) 2'‑O‑methyltransferase |
| RA | 4,213,082 | C→A | noncoding (43/120 nt) | rrfE → | 5S ribosomal RNA |
| 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 | 4,443,534 | C→A | L385M (CTG→ATG) | tamA → | translocation and assembly module subunit TamA |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102995 | 3104069 | 1075 | 12 [10] | [10] 12 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423791–3424234 | 3424526–3424243 | 10–736 | 12 [8] | [11] 12 | [rrlD] | [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 374922 = | NA (NA) | 24 (0.470) | 9/260 | 3.0 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377329 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 374963 | NA (NA) | 9 (0.240) | 8/190 | 2.3 | NA | noncoding (33/34 nt) | other | REP31a |
| ? | NC_000913 | = 377487 | NA (NA) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 375023 = | NA (NA) | 13 (0.350) | 6/192 | 2.9 | NA | intergenic (+142/‑436) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377530 = | NA (NA) | intergenic (+219/+5) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 411076 = | NA (NA) | 16 (0.300) | 12/274 | 2.5 | NA | intergenic (+24/+221) | mak/araJ | manno(fructo)kinase/putative transport protein AraJ |
| ? | NC_000913 | = 4296058 | NA (NA) | intergenic (+264/+378) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO | |||||
| * | ? | NC_000913 | 1207790 = | 16 (0.300) | 66 (1.380) | 43/244 | 0.1 | 77.6% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 24 (0.500) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 16 (0.300) | 37 (0.770) | 26/244 | 0.6 | 66.0% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 24 (0.500) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 76 (1.450) | 48/268 | 0.1 | 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 = | 75 (1.390) | 79 (1.470) | 50/274 | 0.1 | 67.1% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 3 (0.060) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 67 (1.240) | 43/276 | 0.2 | 97.1% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.040) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | 4373295 = | NA (NA) | 19 (0.380) | 9/256 | 2.9 | NA | noncoding (2/34 nt) | other | REP328b |
| ? | NC_000913 | 4374499 = | NA (NA) | noncoding (1/34 nt) | other | REP329a | |||||