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 77 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,586 | 0 | A | T | 72.2% | 5.9 / 10.2 | 18 | N272K (AAT→AAA) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 595,032 | 0 | T | G | 64.7% | 2.1 / 11.9 | 17 | V288G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| * | NZ_CP009273 | 3,175,957 | 0 | A | T | 64.3% | ‑1.0 / 27.0 | 28 | I17F (ATT→TTT) | zupT | zinc transporter ZupT |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 63.8% | ‑0.2 / 39.6 | 48 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 1,379,045 | 0 | T | G | 61.1% | ‑2.1 / 11.8 | 18 | G224G (GGT→GGG) | ycjX | YcjX family protein |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 60.4% | ‑2.7 / 43.9 | 48 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 1,906,007 | 0 | T | G | 59.1% | 13.5 / 22.6 | 22 | H276P (CAC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 595,035 | 0 | T | G | 58.8% | ‑3.0 / 14.8 | 17 | V289G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| * | NZ_CP009273 | 3,726,640 | 0 | T | A | 58.3% | 2.5 / 28.4 | 24 | N360K (AAT→AAA) | xylG | D‑xylose ABC transporter ATP‑binding protein |
| * | NZ_CP009273 | 1,318,440 | 0 | T | G | 57.1% | 6.4 / 13.7 | 14 | V29G (GTG→GGG) | yciO | L‑threonylcarbamoyladenylate synthase |
| * | NZ_CP009273 | 3,029,116 | 0 | A | C | 56.2% | 9.0 / 17.5 | 16 | G175G (GGT→GGG) | prfB | peptide chain release factor 2 |
| * | NZ_CP009273 | 353,601 | 0 | C | A | 55.0% | ‑3.0 / 13.8 | 20 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 2,088,380 | 0 | A | C | 55.0% | 10.1 / 21.5 | 20 | Y122S (TAC→TCC) | hisH | imidazole glycerol phosphate synthase subunit HisH |
| * | NZ_CP009273 | 3,726,648 | 0 | T | C | 55.0% | 7.4 / 20.0 | 20 | L363P (CTC→CCC) | xylG | D‑xylose ABC transporter ATP‑binding protein |
| * | NZ_CP009273 | 4,558,321 | 0 | T | G | 53.1% | 38.0 / 46.3 | 32 | T6P (ACC→CCC) | mdtM | multidrug efflux MFS transporter MdtM |
| * | NZ_CP009273 | 1,447,744 | 0 | A | C | 52.9% | 13.2 / 19.7 | 17 | G52G (GGT→GGG) | paaZ | phenylacetic acid degradation bifunctional protein PaaZ |
| * | NZ_CP009273 | 1,555,008 | 0 | T | G | 52.9% | ‑1.2 / 11.7 | 19 | D60A (GAC→GCC) | ddpB | ABC transporter permease |
| * | NZ_CP009273 | 349,999 | 0 | T | G | 52.8% | 27.2 / 50.5 | 36 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NZ_CP009273 | 2,852,805 | 0 | T | G | 52.0% | 19.0 / 28.9 | 25 | V785G (GTT→GGT) | mutS | DNA mismatch repair protein MutS |
| * | NZ_CP009273 | 3,578,446 | 0 | A | C | 51.8% | 18.6 / 37.7 | 27 | Y580D (TAC→GAC) | ggt | gamma‑glutamyltransferase |
| 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 | 4229668 = | 51 (1.460) | 4 (0.130) | 4/146 | 2.1 | 9.2% | intergenic (+10/+37) | yjbH/BW25113_RS25330 | YjbH domain‑containing protein/periplasmic protein |
| ? | NZ_CP009273 | 4229700 = | 35 (1.150) | intergenic (+42/+5) | yjbH/BW25113_RS25330 | YjbH domain‑containing protein/periplasmic protein | |||||
| * | ? | NZ_CP009273 | = 3337074 | 53 (1.520) | 3 (0.090) | 3/164 | 2.6 | 5.4% | coding (336/558 nt) | lptA | lipopolysaccharide ABC transporter substrate‑binding protein LptA |
| ? | NZ_CP009273 | 3337087 = | 53 (1.550) | coding (349/558 nt) | lptA | lipopolysaccharide ABC transporter substrate‑binding protein LptA | |||||