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 |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,604,344 | 0 | C | T | 47.1% | 44.0 / 56.1 | 68 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 650,809 | 0 | T | G | 39.6% | 61.4 / 16.5 | 48 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 35.2% | 68.0 / 50.7 | 55 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,001,918 | 0 | A | C | 34.4% | 48.0 / 10.3 | 32 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 3,178,680 | 0 | A | G | 34.4% | 96.7 / 96.1 | 96 | N189S (AAC→AGC) | tolC | outer membrane channel TolC |
| * | NC_000913 | 4,101,514 | 0 | G | T | 30.6% | 83.6 / 10.9 | 36 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 3,915,866 | 0 | T | G | 30.0% | 102.4 / 10.6 | 60 | Y36S (TAC→TCC) | atpC | ATP synthase F1 complex subunit epsilon |
| * | NC_000913 | 4,111,747 | 0 | G | T | 29.2% | 118.3 / 23.5 | 48 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 332,991 | 0 | G | T | 28.6% | 95.9 / 14.9 | 42 | L207F (TTG→TTT) | pdeL | DNA‑binding transcriptional activator/c‑di‑GMP phosphodiesterase PdeL |
| * | NC_000913 | 526,918 | 0 | T | C | 25.5% | 334.1 / 129.5 | 184 | Y1220H (TAC→CAC) | rhsD | protein RhsD |
| * | NC_000913 | 2,168,966 | 0 | A | C | 25.3% | 153.0 / 15.5 | 75 | I85I (ATA→ATC) | yegS | lipid kinase |
| * | NC_000913 | 2,326,450 | 0 | T | G | 25.0% | 96.5 / 15.5 | 48 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 372,640 | 0 | T | G | 24.5% | 105.7 / 10.9 | 53 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 3,240,985 | 0 | T | G | 24.5% | 106.5 / 15.5 | 53 | S348A (TCT→GCT) | sstT | serine/threonine:Na(+) symporter |
| * | NC_000913 | 3,206,435 | 0 | C | T | 23.3% | 87.1 / 15.0 | 43 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 3,419,770 | 0 | T | C | 22.5% | 152.0 / 44.4 | 80 | pseudogene (729/1025 nt) | yhdW | putative ABC transporter periplasmic binding protein YhdW |
| * | NC_000913 | 3,926,366 | 0 | A | C | 21.1% | 153.3 / 17.1 | 71 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| * | NC_000913 | 2,503,836 | 0 | T | C | 21.1% | 72.2 / 17.1 | 38 | E217G (GAG→GGG) | fryA | putative PTS multiphosphoryl transfer protein FryA |
| * | NC_000913 | 4,287,719 | 0 | T | A | 20.7% | 149.3 / 15.6 | 58 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 71 (1.040) | 11 (0.180) | 10/244 | 3.0 | 14.8% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 64 (1.070) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 374921 = | NA (NA) | 8 (0.170) | 5/190 | 3.7 | 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 | 374922 = | NA (NA) | 6 (0.120) | 3/202 | 4.7 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377430 = | NA (NA) | intergenic (+119/+105) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||