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 | 76,303 | C→A | E333* (GAA→TAA) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 167,905 | G→T | G141V (GGC→GTC) | fhuA → | ferrichrome outer membrane transporter/phage receptor |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 308,999 | C→A | A112S (GCT→TCT) | ecpC ← | putative fimbrial usher protein EcpC |
| RA | 483,900 | +A | coding (504/3150 nt) | acrB ← | multidrug efflux pump RND permease AcrB |
| RA | 485,580 | G→T | L14M (CTG→ATG) | acrA ← | multidrug efflux pump membrane fusion lipoprotein AcrA |
| RA | 736,932 | C→A | pseudogene (33/1062 nt) | ybfL → | putative transposase YbfL |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,250,786 | C→A | G18V (GGA→GTA) | dhaK ← | dihydroxyacetone kinase subunit K |
| 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 |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,091,803 | C→A | P236Q (CCG→CAG) | hisD → | histidinal/histidinol dehydrogenase |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,506,951 | C→A | G315V (GGT→GTT) | fryC ← | putative PTS enzyme IIC component FryC |
| RA | 2,518,657 | C→A | A64E (GCG→GAG) | yfeC → | putative DNA‑binding transcriptional regulator YfeC |
| RA | 2,617,822 | C→A | A82E (GCG→GAG) | yfgD → | putative oxidoreductase YfgD |
| RA | 2,910,706 | G→T | intergenic (‑21/+50) | mazG ← / ← mazF | nucleoside triphosphate pyrophosphohydrolase/endoribonuclease toxin MazF |
| RA | 3,234,777 | C→A | V367L (GTG→TTG) | rlmG ← | 23S rRNA m(2)G1835 methyltransferase |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,386,659 | C→A | R510S (AGG→AGT) | aaeB ← | aromatic carboxylic acid efflux pump subunit AaeB |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,671,461 | C→A | R145L (CGC→CTC) | yhjB ← | putative DNA‑binding transcriptional regulator YhjB |
| RA | 3,708,678 | C→A | noncoding (15/77 nt) | proK ← | tRNA‑Pro |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,936,712 | G→T | A145A (GCG→GCT) | rbsB → | ribose ABC transporter periplasmic binding protein |
| RA | 4,109,295 | G→T | W154C (TGG→TGT) | sbp → | sulfate/thiosulfate ABC transporter periplasmic binding protein Sbp |
| RA | 4,200,061 | T→C | G186G (GGT→GGC) | yjaG → | conserved protein YjaG |
| 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 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102972 | 3104069 | 1098 | 20 [19] | [18] 20 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423770–3424230 | 3424525–3424238 | 9–756 | 22 [17] | [14] 21 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 39 (0.450) | 105 (1.380) | 62/244 | 0.1 | 79.1% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 21 (0.280) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 39 (0.450) | 68 (0.900) | 50/244 | 0.2 | 71.0% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 21 (0.280) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 150 (1.800) | 74/268 | 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 | 2288919 = | NA (NA) | 49 (0.570) | 26/276 | 1.8 | 30.6% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 4542164 | 111 (1.290) | coding (128/597 nt) | fimE | regulator for fimA | |||||
| * | ? | NC_000913 | = 2290113 | NA (NA) | 46 (0.540) | 23/276 | 2.1 | 29.1% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 4542161 = | 112 (1.310) | coding (125/597 nt) | fimE | regulator for fimA | |||||
| * | ? | NC_000913 | 3363001 = | 171 (1.990) | 149 (1.750) | 71/274 | 0.1 | 63.4% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 2 (0.020) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 114 (1.330) | 69/276 | 0.1 | 96.6% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 4 (0.050) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||