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 47 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,168,596 | 0 | G | T | 61.1% | 5.6 / 18.5 | 18 | R54S (CGC→AGC) | parE | DNA topoisomerase IV subunit B |
| * | NZ_CP009273 | 294,671 | 0 | A | C | 60.0% | 3.9 / 15.3 | 15 | Y659D (TAT→GAT) | paoC | aldehyde oxidoreductase molybdenum‑binding subunit PaoC |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 60.0% | 2.0 / 61.0 | 56 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 59.3% | 13.4 / 40.7 | 27 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| * | NZ_CP009273 | 3,012,922 | 0 | T | G | 59.1% | 14.4 / 25.4 | 22 | S135A (TCG→GCG) | ssnA | putative aminohydrolase SsnA |
| * | NZ_CP009273 | 1,561,995 | 0 | A | T | 58.3% | 2.2 / 10.9 | 12 | V362V (GTT→GTA) | digH | glycoside hydrolase family 10 protein |
| * | NZ_CP009273 | 1,579,118 | 0 | T | G | 58.3% | 10.1 / 13.0 | 13 | K542N (AAA→AAC) | ydeP | acid resistance putative oxidoreductase YdeP |
| * | NZ_CP009273 | 3,781,385 | 0 | T | G | 57.1% | 8.1 / 21.2 | 21 | G396G (GGT→GGG) | envC | murein hydrolase activator EnvC |
| * | NZ_CP009273 | 294,664 | 0 | A | C | 56.2% | 12.8 / 19.1 | 16 | V661G (GTG→GGG) | paoC | aldehyde oxidoreductase molybdenum‑binding subunit PaoC |
| * | NZ_CP009273 | 1,455,394 | 0 | C | T | 54.5% | 1.3 / 11.4 | 11 | S82F (TCC→TTC) | paaJ | bifunctional 3‑oxoadipyl‑CoA/3‑oxo‑5,6‑dehydrosuberyl‑CoA thiolase |
| * | NZ_CP009273 | 2,370,630 | 0 | A | C | 54.5% | 6.0 / 13.2 | 11 | Y148D (TAT→GAT) | menH | 2‑succinyl‑6‑hydroxy‑2, 4‑cyclohexadiene‑1‑carboxylate synthase |
| * | NZ_CP009273 | 2,636,048 | 0 | T | G | 54.5% | 5.6 / 10.6 | 11 | A52A (GCA→GCC) | rodZ | cytoskeleton protein RodZ |
| * | NZ_CP009273 | 240,196 | 0 | A | C | 53.8% | 2.4 / 12.0 | 13 | H56P (CAT→CCT) | lpcA | D‑sedoheptulose 7‑phosphate isomerase |
| * | NZ_CP009273 | 371,857 | 0 | T | G | 53.8% | 5.3 / 11.9 | 13 | L315V (TTG→GTG) | mhpT | 3‑(3‑hydroxy‑phenyl)propionate transporter |
| * | NZ_CP009273 | 2,994,529 | 0 | A | C | 53.8% | 7.1 / 12.9 | 13 | T289P (ACC→CCC) | xdhA | xanthine dehydrogenase molybdenum‑binding subunit XdhA |
| * | NZ_CP009273 | 3,199,794 | 0 | C | T | 53.8% | ‑2.3 / 12.7 | 13 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| * | NZ_CP009273 | 3,199,803 | 0 | T | A | 53.8% | 5.3 / 17.3 | 13 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 53.6% | 17.0 / 69.6 | 56 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 228,175 | 0 | A | G | 53.3% | 9.4 / 18.8 | 15 | G189G (GGA→GGG) | yafD | endonuclease/exonuclease/phosphatase family protein |
| * | NZ_CP009273 | 997,447 | 0 | T | G | 53.3% | 4.6 / 14.6 | 15 | V62G (GTA→GGA) | elfG | fimbrial protein |
| 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 | 3512437 = | 17 (0.700) | 3 (0.130) | 3/164 | 1.8 | 15.6% | intergenic (‑14/+387) | aroK/hofQ | shikimate kinase AroK/DNA uptake porin HofQ |
| ? | NZ_CP009273 | 3645396 = | NA (NA) | pseudogene (746/747 nt) | BW25113_RS18155 | hypothetical protein | |||||