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 (highest frequency 20 of 67 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,725,084 | 0 | G | A | 66.7% | ‑5.8 / 17.6 | 24 | L198L (TTG→TTA) | xylF | D‑xylose ABC transporter substrate‑binding protein |
| * | NZ_CP009273 | 585,386 | 0 | A | G | 61.5% | 1.8 / 11.1 | 13 | L342P (CTC→CCC) | nfrA | bacteriophage adsorption protein NfrA |
| * | NZ_CP009273 | 4,527,926 | 0 | A | C | 61.5% | 2.1 / 12.4 | 13 | G219G (GGT→GGG) | nanM | N‑acetylneuraminate epimerase |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 61.0% | ‑2.0 / 45.0 | 41 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 1,267,283 | 0 | A | T | 60.0% | ‑5.4 / 13.8 | 15 | V8E (GTA→GAA) | chaA | sodium‑potassium/proton antiporter ChaA |
| * | NZ_CP009273 | 3,578,446 | 0 | A | C | 58.3% | ‑0.6 / 10.6 | 12 | Y580D (TAC→GAC) | ggt | gamma‑glutamyltransferase |
| * | NZ_CP009273 | 5,159 | 0 | G | A | 57.9% | ‑0.0 / 20.2 | 19 | intergenic (+139/‑75) | thrC/yaaX | threonine synthase/DUF2502 domain‑containing protein |
| * | NZ_CP009273 | 2,255,305 | 0 | T | G | 57.9% | 17.4 / 21.4 | 20 | A180A (GCA→GCC) | fruK | 1‑phosphofructokinase |
| * | NZ_CP009273 | 585,390 | 0 | T | G | 57.1% | 4.7 / 15.7 | 14 | T341P (ACC→CCC) | nfrA | bacteriophage adsorption protein NfrA |
| * | NZ_CP009273 | 1,267,278 | 0 | T | G | 57.1% | 8.6 / 14.0 | 14 | T10P (ACC→CCC) | chaA | sodium‑potassium/proton antiporter ChaA |
| * | NZ_CP009273 | 1,622,316 | 0 | T | G | 57.1% | 3.3 / 11.3 | 14 | G181G (GGT→GGG) | ydfG | bifunctional NADP‑dependent 3‑hydroxy acid dehydrogenase/3‑hydroxypropionate dehydrogenase YdfG |
| * | NZ_CP009273 | 1,622,319 | 0 | T | G | 57.1% | 6.4 / 13.0 | 14 | G182G (GGT→GGG) | ydfG | bifunctional NADP‑dependent 3‑hydroxy acid dehydrogenase/3‑hydroxypropionate dehydrogenase YdfG |
| * | NZ_CP009273 | 1,906,011 | 0 | T | G | 57.1% | 12.1 / 16.1 | 14 | T275P (ACC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 2,002,571 | 0 | A | G | 57.1% | 5.4 / 11.9 | 14 | I272V (ATC→GTC) | yedE | selenium metabolism membrane protein YedE/FdhT |
| * | NZ_CP009273 | 4,102,527 | 0 | T | G | 57.1% | 4.1 / 13.3 | 14 | G95G (GGT→GGG) | yiiR | DUF805 domain‑containing protein |
| * | NZ_CP009273 | 3,175,957 | 0 | A | T | 56.2% | 3.8 / 17.0 | 16 | I17F (ATT→TTT) | zupT | zinc transporter ZupT |
| * | NZ_CP009273 | 4,102,506 | 0 | T | G | 56.2% | 8.9 / 17.3 | 16 | G88G (GGT→GGG) | yiiR | DUF805 domain‑containing protein |
| * | NZ_CP009273 | 1,530,046 | 0 | C | A | 55.6% | 4.4 / 11.9 | 9 | V24F (GTT→TTT) | yddE | PhzF family isomerase |
| * | NZ_CP009273 | 3,492,959 | 0 | T | G | 55.6% | 18.5 / 22.0 | 18 | G51G (GGT→GGG) | yhfL | YhfL family protein |
| * | NZ_CP009273 | 4,186,017 | 0 | G | T | 55.6% | 17.7 / 29.7 | 18 | T4K (ACA→AAA) | thiC | phosphomethylpyrimidine synthase ThiC |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | = 4532507 | 6 (0.230) | 3 (0.130) | 3/150 | 2.1 | 18.0% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 22 (0.930) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||