mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 529 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 357,890 | 0 | C | A | 50.0% | 12.8 / 30.0 | 36 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 2,483,268 | 0 | T | A | 48.4% | 54.7 / 46.4 | 64 | L24F (TTA→TTT) | emrK | multidrug resistance efflux pump membrane fusion protein |
| * | NC_000913 | 786,855 | 0 | A | C | 45.3% | 116.9 / 21.5 | 75 | G247G (GGT→GGG) | gpmA | phosphoglyceromutase 1 |
| * | NC_000913 | 1,491,098 | 0 | A | C | 45.1% | 106.5 / 10.7 | 73 | Y66S (TAC→TCC) | cybB | cytochrome b561 |
| * | NC_000913 | 312,169 | 0 | T | G | 44.9% | 92.3 / 28.0 | 78 | L20V (TTG→GTG) | ykgL | uncharacterized protein |
| * | NC_000913 | 3,840,646 | 0 | T | C | 44.8% | 67.2 / 30.1 | 59 | D365G (GAT→GGT) | nepI | putative transporter |
| * | NC_000913 | 3,350,844 | 0 | A | C | 43.3% | 105.2 / 16.4 | 68 | L728V (TTA→GTA) | arcB | aerobic respiration control sensor histidine protein kinase, cognate to two‑component response regulators ArcA and RssB |
| * | NC_000913 | 40,515 | 0 | G | T | 41.8% | 72.7 / 32.3 | 68 | Q473K (CAA→AAA) | caiT | putative transporter |
| * | NC_000913 | 941,713 | 0 | T | G | 41.7% | 90.6 / 16.6 | 61 | V252G (GTG→GGG) | dmsA | dimethyl sulfoxide reductase, anaerobic, subunit A |
| * | NC_000913 | 2,434,882 | 0 | T | G | 41.7% | 93.8 / 22.2 | 60 | Y252S (TAC→TCC) | truA | tRNA pseudouridine(38‑40) synthase |
| * | NC_000913 | 3,105,499 | 0 | A | C | 40.9% | 121.0 / 12.0 | 66 | Y356S (TAC→TCC) | mltC | membrane‑bound lytic murein transglycosylase C |
| * | NC_000913 | 3,350,853 | 0 | A | C | 40.9% | 114.6 / 11.0 | 66 | S725A (TCA→GCA) | arcB | aerobic respiration control sensor histidine protein kinase, cognate to two‑component response regulators ArcA and RssB |
| * | NC_000913 | 354,288 | 0 | T | G | 39.7% | 116.4 / 10.2 | 63 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NC_000913 | 1,489,174 | 0 | G | T | 39.2% | 115.2 / 28.3 | 74 | G315C (GGT→TGT) | aldA | aldehyde dehydrogenase A, NAD‑linked |
| * | NC_000913 | 4,258,974 | 0 | T | G | 39.2% | 128.3 / 14.8 | 75 | G411G (GGT→GGG) | dinF | oxidative stress resistance protein; putative MATE family efflux pump; UV and mitomycin C inducible protein |
| * | NC_000913 | 1,097,038 | 0 | A | G | 39.1% | 94.5 / 14.5 | 64 | intergenic (+209/+527) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| * | NC_000913 | 3,786,512 | 0 | T | G | 39.1% | 109.2 / 17.2 | 64 | V418G (GTT→GGT) | gpmM | phosphoglycero mutase III, cofactor‑independent |
| * | NC_000913 | 266,349 | 0 | C | A | 39.0% | 126.7 / 20.4 | 59 | V69F (GTT→TTT) | yafY | lipoprotein, inner membrane; degP regulator; CP4‑6 prophage |
| * | NC_000913 | 73,413 | 0 | A | C | 38.9% | 82.3 / 16.0 | 55 | V370G (GTG→GGG) | thiP | thiamine/thiamine pyrophosphate ABC transporter permease |
| * | NC_000913 | 3,443,277 | 0 | A | C | 38.9% | 124.4 / 21.8 | 72 | V274G (GTA→GGA) | secY | preprotein translocase membrane subunit |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 54 (0.710) | 8 (0.120) | 8/266 | 9.9 | 13.5% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 54 (0.800) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 56 (0.740) | 8 (0.120) | 8/266 | 9.9 | 13.3% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 54 (0.800) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||