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 40 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,348,810 | 0 | A | C | 68.8% | 4.2 / 12.0 | 16 | T243P (ACC→CCC) | gltB | glutamate synthase large subunit |
| * | NZ_CP009273 | 3,659,058 | 0 | T | C | 68.2% | 2.1 / 17.5 | 22 | D38G (GAT→GGT) | gadX | acid resistance transcriptional activator GadX |
| * | NZ_CP009273 | 1,927,669 | 0 | G | C | 64.7% | 3.5 / 17.5 | 17 | A398G (GCG→GGG) | edd | phosphogluconate dehydratase |
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 63.6% | 1.8 / 26.0 | 22 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| * | NZ_CP009273 | 4,464,506 | 0 | A | G | 61.1% | 2.4 / 25.7 | 37 | E189G (GAA→GGA) | bdcR | TetR/AcrR family transcriptional regulator |
| * | NZ_CP009273 | 3,029,116 | 0 | A | C | 60.0% | 7.8 / 16.2 | 15 | G175G (GGT→GGG) | prfB | peptide chain release factor 2 |
| * | NZ_CP009273 | 3,199,794 | 0 | C | T | 58.8% | ‑4.1 / 18.8 | 17 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| * | NZ_CP009273 | 699,632 | 0 | T | G | 58.3% | 3.2 / 12.0 | 12 | V78G (GTA→GGA) | nagE | PTS N‑acetyl glucosamine transporter subunit IIABC |
| * | NZ_CP009273 | 497,013 | 0 | A | C | 57.1% | 11.2 / 17.2 | 14 | intergenic (+128/+5) | gsk/ybaL | inosine/guanosine kinase/Kef family K(+) transporter |
| * | NZ_CP009273 | 69,900 | 0 | A | C | 56.2% | 10.4 / 17.4 | 16 | V370G (GTG→GGG) | thiP | thiamine/thiamine pyrophosphate ABC transporter permease ThiP |
| * | NZ_CP009273 | 699,627 | 0 | T | G | 56.2% | 12.8 / 20.5 | 16 | G76G (GGT→GGG) | nagE | PTS N‑acetyl glucosamine transporter subunit IIABC |
| * | NZ_CP009273 | 3,348,816 | 0 | A | C | 56.2% | 10.8 / 16.5 | 16 | T245P (ACC→CCC) | gltB | glutamate synthase large subunit |
| * | NZ_CP009273 | 3,578,446 | 0 | A | C | 56.2% | 7.4 / 19.9 | 16 | Y580D (TAC→GAC) | ggt | gamma‑glutamyltransferase |
| * | NZ_CP009273 | 353,601 | 0 | C | A | 55.6% | 5.0 / 19.9 | 18 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 1,927,661 | 0 | A | T | 55.6% | 3.5 / 23.3 | 18 | S401T (TCA→ACA) | edd | phosphogluconate dehydratase |
| * | NZ_CP009273 | 725,104 | 0 | T | G | 54.5% | 5.5 / 10.0 | 11 | G22G (GGT→GGG) | rhsC | rhs element protein RhsC |
| * | NZ_CP009273 | 737,562 | 0 | A | C | 54.5% | 7.4 / 13.1 | 11 | S151A (TCT→GCT) | dtpD | dipeptide permease DtpD |
| * | NZ_CP009273 | 1,152,727 | 0 | T | G | 54.5% | 9.9 / 13.4 | 11 | G165G (GGT→GGG) | ycfH | metal‑dependent hydrolase |
| * | NZ_CP009273 | 1,370,606 | 0 | A | C | 54.5% | 9.8 / 13.5 | 11 | T106P (ACC→CCC) | ycjR | sugar phosphate isomerase/epimerase |
| * | NZ_CP009273 | 2,388,923 | 0 | A | C | 54.2% | 24.1 / 28.5 | 24 | G151G (GGT→GGG) | nuoJ | NADH‑quinone oxidoreductase subunit J |
| 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 | = 1684417 | 11 (0.540) | 4 (0.220) +CAGTGACAAC |
3/146 | 1.5 | 21.6% | coding (309/1509 nt) | ydgA | YdgA family protein |
| ? | NZ_CP009273 | = 3404280 | 22 (1.080) | coding (642/966 nt) | dusB | tRNA dihydrouridine synthase DusB | |||||