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 115 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,221,751 | 0 | A | C | 61.1% | 10.0 / 16.1 | 18 | pseudogene (487/1436 nt) | mdtQ | multidrug resistance outer membrane protein MdtQ |
| * | NZ_CP009273 | 2,290,243 | 0 | T | G | 61.1% | 25.5 / 41.1 | 37 | L87F (TTA→TTC) | ccmB | heme exporter protein CcmB |
| * | NZ_CP009273 | 2,023,591 | 0 | T | G | 60.0% | 5.3 / 14.8 | 20 | V191G (GTG→GGG) | yedA | drug/metabolite exporter YedA |
| * | NZ_CP009273 | 595,032 | 0 | T | G | 57.9% | ‑4.3 / 21.7 | 19 | V288G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| * | NZ_CP009273 | 2,667,520 | 0 | A | C | 57.9% | 6.3 / 19.8 | 19 | G176G (GGT→GGG) | yphB | aldose 1‑epimerase |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 57.3% | 12.9 / 85.9 | 75 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 1,235,279 | 0 | T | G | 57.1% | 4.7 / 10.5 | 14 | G315G (GGT→GGG) | dadX | catabolic alanine racemase DadX |
| * | NZ_CP009273 | 1,267,278 | 0 | T | G | 56.2% | 12.1 / 19.4 | 16 | T10P (ACC→CCC) | chaA | sodium‑potassium/proton antiporter ChaA |
| * | NZ_CP009273 | 822,955 | 0 | T | G | 56.0% | 18.7 / 33.0 | 25 | T495P (ACC→CCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 2,738,448 | 0 | A | C | 55.3% | 10.5 / 33.1 | 38 | V84G (GTG→GGG) | trmD | tRNA (guanosine(37)‑N1)‑methyltransferase TrmD |
| * | NZ_CP009273 | 2,636,048 | 0 | T | G | 54.5% | 8.0 / 12.6 | 11 | A52A (GCA→GCC) | rodZ | cytoskeleton protein RodZ |
| * | NZ_CP009273 | 2,380,362 | 0 | C | T | 54.2% | ‑2.5 / 26.9 | 24 | intergenic (+52/‑51) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 2,738,462 | 0 | A | C | 54.0% | 30.4 / 43.8 | 37 | G79G (GGT→GGG) | trmD | tRNA (guanosine(37)‑N1)‑methyltransferase TrmD |
| * | NZ_CP009273 | 3,348,810 | 0 | A | C | 54.0% | 43.1 / 51.7 | 37 | T243P (ACC→CCC) | gltB | glutamate synthase large subunit |
| * | NZ_CP009273 | 765,675 | 0 | A | C | 53.8% | 23.1 / 29.6 | 26 | T748P (ACC→CCC) | mngB | mannosylglycerate hydrolase |
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 53.6% | 2.5 / 31.8 | 28 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 3,175,957 | 0 | A | T | 53.3% | 8.3 / 33.4 | 30 | I17F (ATT→TTT) | zupT | zinc transporter ZupT |
| * | NZ_CP009273 | 3,357,755 | 0 | A | T | 53.3% | 28.0 / 65.4 | 45 | P530P (CCA→CCT) | yhcD | fimbrial biogenesis outer membrane usher protein |
| * | NZ_CP009273 | 353,591 | 0 | T | C | 52.9% | 11.5 / 21.4 | 17 | K271E (AAA→GAA) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 595,035 | 0 | T | G | 52.6% | 9.1 / 22.5 | 19 | V289G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| 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 | 4532499 = | 29 (0.660) | 9 (0.230) | 8/150 | 1.6 | 18.2% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 55 (1.400) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||