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 | 27,977 | G→T | G229C (GGC→TGC) | rihC → | ribonucleoside hydrolase RihC |
| RA | 96,565 | C→A | G188G (GGC→GGA) | mraY → | phospho‑N‑acetylmuramoyl‑pentapeptide‑ transferase |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 354,035 | G→T | G444W (GGG→TGG) | prpE → | propionyl‑CoA synthetase |
| RA | 470,620 | C→A | R584S (CGC→AGC) | mdlA → | ABC transporter family protein MdlA |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 927,511 | C→A | R562I (AGA→ATA) | cydC ← | glutathione/L‑cysteine ABC exporter subunit CydC |
| 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 | 1,196,245 | T→C | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,247 | A→G | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,277 | C→T | N385N (AAC→AAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,280 | G→C | A386A (GCG→GCC) | icd → | isocitrate dehydrogenase |
| RA | 1,196,283 | A→G | K387K (AAA→AAG) | icd → | isocitrate dehydrogenase |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| MC JC | 1,736,296 | Δ12 bp | coding (984‑995/1170 nt) | ydhP ← | putative transporter YdhP |
| RA | 1,742,680 | G→T | T188N (ACT→AAT) | ribC ← | riboflavin synthase |
| 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 | 2,338,277 | C→T | A382T (GCA→ACA) | gyrA ← | DNA gyrase subunit A |
| RA | 2,629,867 | G→T | A26S (GCT→TCT) | yfgH → | lipoprotein YfgH |
| RA | 2,684,867 | G→T | P214Q (CCG→CAG) | glyA ← | serine hydroxymethyltransferase |
| RA | 2,715,375 | (T)7→6 | intergenic (‑55/‑48) | yfiE ← / → eamB | putative LysR‑type DNA‑binding transcriptional regulator YfiE/cysteine/O‑acetylserine exporter EamB |
| RA | 2,731,060 | T→C | noncoding (98/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 3,122,489 | G→T | I439I (ATC→ATA) | glcB ← | malate synthase G |
| RA | 3,235,293 | C→A | E195* (GAA→TAA) | rlmG ← | 23S rRNA m(2)G1835 methyltransferase |
| RA | 3,245,109 | A→C | intergenic (‑368/‑115) | uxaC ← / → exuT | D‑glucoronate/D‑galacturonate isomerase/hexuronate transporter |
| 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 | 3,685,332 | A→T | L96Q (CTG→CAG) | pdeK ← | putative c‑di‑GMP phosphodiesterase PdeK |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,995,832 | G→T | G84C (GGC→TGC) | yigA → | conserved protein YigA |
| RA | 3,997,400 | C→A | T73K (ACG→AAG) | yigB → | 5‑amino‑6‑(5‑phospho‑D‑ribitylamino)uracil phosphatase |
| RA | 4,095,230 | G→T | S251R (AGC→AGA) | rhaA ← | L‑rhamnose isomerase |
| RA | 4,112,586 | C→A | A91E (GCG→GAG) | yiiR → | DUF805 domain‑containing protein YiiR |
| 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 | 4,340,044 | G→T | P160T (CCA→ACA) | adiA ← | arginine decarboxylase, degradative |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196287 | 1211433 | 15147 | 8 [6] | [6] 7 | [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 | 3102987 | 3104043 | 1057 | 7 [6] | [0] 7 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423770–3424230 | 3424525–3424239 | 10–756 | 7 [5] | [5] 7 | [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) | 57 (1.520) | 36/268 | 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 = | 72 (1.870) | 56 (1.460) | 41/274 | 0.1 | 60.7% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 1 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 46 (1.190) | 34/276 | 0.2 | 95.8% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.050) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||