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 230 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 45.8% | ‑3.3 / 16.6 | 24 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 2,221,754 | 0 | T | C | 43.9% | 57.9 / 18.1 | 57 | pseudogene (484/1436 nt) | mdtQ | multidrug resistance outer membrane protein MdtQ |
| * | NZ_CP009273 | 353,586 | 0 | A | T | 41.4% | 22.2 / 12.0 | 32 | N272K (AAT→AAA) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 2,221,718 | 0 | G | C | 36.5% | 71.8 / 14.3 | 52 | pseudogene (520/1436 nt) | mdtQ | multidrug resistance outer membrane protein MdtQ |
| * | NZ_CP009273 | 3,856,037 | 0 | G | A | 36.5% | 6.3 / 27.8 | 55 | pseudogene (927/1617 nt) | BW25113_RS19145 | PTS sugar transporter subunit IIB |
| * | NZ_CP009273 | 1,548,257 | 0 | T | G | 35.3% | 120.5 / 18.3 | 90 | Y557S (TAC→TCC) | maeA | malate dehydrogenase |
| * | NZ_CP009273 | 4,036,390 | 0 | A | G | 34.3% | 107.4 / 19.0 | 67 | N206D (AAT→GAT) | srkA | stress response kinase SrkA |
| * | NZ_CP009273 | 3,856,030 | 0 | T | A | 34.0% | 37.8 / 12.7 | 54 | pseudogene (934/1617 nt) | BW25113_RS19145 | PTS sugar transporter subunit IIB |
| * | NZ_CP009273 | 2,221,757 | 0 | G | C | 33.9% | 90.1 / 12.8 | 56 | pseudogene (481/1436 nt) | mdtQ | multidrug resistance outer membrane protein MdtQ |
| * | NZ_CP009273 | 3,856,024 | 0 | C | G | 33.3% | 50.4 / 18.1 | 56 | pseudogene (940/1617 nt) | BW25113_RS19145 | PTS sugar transporter subunit IIB |
| * | NZ_CP009273 | 3,856,021 | 0 | T | G | 32.1% | 49.7 / 14.5 | 57 | pseudogene (943/1617 nt) | BW25113_RS19145 | PTS sugar transporter subunit IIB |
| * | NZ_CP009273 | 2,221,729 | 0 | A | T | 32.1% | 79.6 / 12.7 | 54 | pseudogene (509/1436 nt) | mdtQ | multidrug resistance outer membrane protein MdtQ |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 32.0% | 209.5 / 50.9 | 122 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 4,245,997 | 0 | G | C | 31.9% | 138.7 / 21.2 | 71 | P133R (CCG→CGG) | plsB | glycerol‑3‑phosphate 1‑O‑acyltransferase PlsB |
| * | NZ_CP009273 | 4,277,647 | 0 | T | A | 31.5% | 213.1 / 45.0 | 111 | intergenic (‑348/‑45) | acs/nrfA | acetate‑‑CoA ligase/ammonia‑forming nitrite reductase cytochrome c552 subunit |
| * | NZ_CP009273 | 883,470 | 0 | T | G | 31.2% | 326.8 / 19.9 | 138 | intergenic (+55/+120) | rcdA/ybjL | DNA‑binding transcriptional regulator RcdA/aspartate:alanine antiporter |
| * | NZ_CP009273 | 1,980,476 | 0 | A | C | 30.7% | 355.9 / 36.0 | 151 | Y24S (TAC→TCC) | ftnB | non‑heme ferritin‑like protein |
| * | NZ_CP009273 | 2,221,722 | 0 | G | C | 30.2% | 91.3 / 11.6 | 54 | pseudogene (516/1436 nt) | mdtQ | multidrug resistance outer membrane protein MdtQ |
| * | NZ_CP009273 | 3,856,028 | 0 | A | G | 29.6% | 73.1 / 12.1 | 54 | pseudogene (936/1617 nt) | BW25113_RS19145 | PTS sugar transporter subunit IIB |
| * | NZ_CP009273 | 748,581 | 0 | T | A | 29.0% | 277.0 / 38.0 | 124 | intergenic (‑330/+60) | ybgD/gltA | fimbrial protein/citrate synthase |
| 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 | 1203246 = | 121 (0.760) | 27 (0.180) | 27/464 | 9.6 | 18.1% | coding (290/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | 1205075 = | 132 (0.890) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 692197 | 82 (0.520) | 11 (0.100) | 10/340 | 12.7 | 12.9% | intergenic (‑1/+15) | BW25113_RS03450/BW25113_RS03455 | tRNA‑Met/tRNA‑Gln |
| ? | NZ_CP009273 | 692591 = | 92 (0.840) | intergenic (‑2/+378) | BW25113_RS03470/asnB | tRNA‑Met/asparagine synthase B | |||||
| * | ? | NZ_CP009273 | = 1203261 | 113 (0.710) | 19 (0.130) | 17/464 | 12.8 | 13.8% | coding (305/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | = 1205058 | 132 (0.890) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 2940826 | 72 (0.450) | 4 (0.040) | 3/330 | 17.2 | 7.5% | intergenic (+4/‑30) | BW25113_RS14635/BW25113_RS14640 | tRNA‑Met/tRNA‑Met |
| ? | NZ_CP009273 | 2941047 = | 51 (0.480) | intergenic (+5/+69) | BW25113_RS14645/amiC | tRNA‑Met/N‑acetylmuramoyl‑L‑alanine amidase AmiC | |||||
| * | ? | NZ_CP009273 | = 4532507 | 211 (1.330) | 6 (0.040) | 6/478 | 18.7 | 3.0% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 182 (1.190) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||