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 289 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 599,576 | 0 | T | G | 52.5% | 72.6 / 105.2 | 60 | V288G (GTG→GGG) | cusA | copper/silver efflux system, membrane component |
| * | NC_000913 | 1,622,816 | 0 | G | A | 51.1% | 3.9 / 67.5 | 47 | intergenic (+75/+144) | yneM/dgcZ | inner membrane‑associated protein/diguanylate cyclase, zinc‑sensing |
| * | NC_000913 | 354,288 | 0 | T | G | 50.9% | 65.7 / 91.7 | 55 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NC_000913 | 1,376,505 | 0 | A | C | 47.4% | 72.2 / 36.0 | 57 | T158P (ACC→CCC) | ycjR | putative TIM alpha/beta barrel enzyme |
| * | NC_000913 | 75,079 | 0 | C | T | 46.5% | 29.4 / 40.9 | 43 | L134L (CTG→CTA) | thiB | thiamine/thiamine pyrophosphate/thiamine monophosphate ABC transporter periplasmic binding protein |
| * | NC_000913 | 29,496 | 0 | T | A | 44.6% | 89.6 / 39.4 | 65 | intergenic (+301/‑155) | dapB/carA | dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase |
| * | NC_000913 | 2,984,441 | 0 | A | C | 44.2% | 85.7 / 12.5 | 52 | G384G (GGT→GGG) | yqeF | short chain acyltransferase |
| * | NC_000913 | 1,222,596 | 0 | G | A | 44.0% | 52.6 / 31.5 | 50 | F13F (TTC→TTT) | ymgD | uncharacterized protein |
| * | NC_000913 | 1,478,324 | 0 | T | G | 43.5% | 105.1 / 10.3 | 63 | G33G (GGT→GGG) | ynbB | putative CDP‑diglyceride synthase |
| * | NC_000913 | 44,763 | 0 | T | G | 43.5% | 72.6 / 11.2 | 46 | V195G (GTT→GGT) | fixC | putative oxidoreductase |
| * | NC_000913 | 2,578,143 | 0 | A | C | 43.4% | 78.0 / 24.2 | 53 | L79V (TTA→GTA) | maeB | malic enzyme: putative oxidoreductase/phosphotransacetylase |
| * | NC_000913 | 1,576,077 | 0 | C | A | 42.9% | 72.6 / 27.9 | 56 | D515Y (GAT→TAT) | yddB | putative TonB‑dependent outer membrane receptor |
| * | NC_000913 | 1,622,802 | 0 | A | T | 42.9% | 61.5 / 34.6 | 49 | intergenic (+61/+158) | yneM/dgcZ | inner membrane‑associated protein/diguanylate cyclase, zinc‑sensing |
| * | NC_000913 | 4,538,109 | 0 | A | C | 42.6% | 104.8 / 28.5 | 69 | G219G (GGT→GGG) | nanM | N‑acetylneuraminic acid mutarotase |
| * | NC_000913 | 3,206,435 | 0 | C | T | 42.6% | 67.1 / 23.9 | 54 | intergenic (‑179/‑28) | ttdR/ttdA | transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit |
| * | NC_000913 | 2,349,145 | 0 | A | C | 42.3% | 85.1 / 14.7 | 52 | F110V (TTC→GTC) | inaA | acid‑inducible Kdo/WaaP family putative kinase |
| * | NC_000913 | 1,825,056 | 0 | G | A | 42.0% | 62.5 / 27.7 | 50 | intergenic (‑119/+84) | ves/spy | cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced |
| * | NC_000913 | 2,434,882 | 0 | T | G | 41.4% | 98.8 / 13.2 | 58 | Y252S (TAC→TCC) | truA | tRNA pseudouridine(38‑40) synthase |
| * | NC_000913 | 941,713 | 0 | T | G | 41.0% | 115.8 / 13.2 | 61 | V252G (GTG→GGG) | dmsA | dimethyl sulfoxide reductase, anaerobic, subunit A |
| * | NC_000913 | 3,508,657 | 0 | A | G | 40.4% | 85.6 / 14.5 | 58 | F386S (TTC→TCC) | yhfW | phosphopentomutase‑related metalloenzyme superfamily protein |
| 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 | 1207790 = | 43 (0.700) | 13 (0.240) | 13/266 | 5.7 | 27.3% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 31 (0.560) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 42 (0.680) | 10 (0.180) | 10/266 | 6.9 | 22.9% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 30 (0.550) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1979270 | NA (NA) | 7 (0.110) | 6/298 | 9.9 | 10.1% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 4360301 | 62 (1.010) | intergenic (‑270/+95) | cadB/cadC | putative lysine/cadaverine transporter/cadBA operon transcriptional activator | |||||
| * | ? | NC_000913 | = 3584195 | NA (NA) | 5 (0.080) | 5/298 | 10.6 | 7.4% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 4360293 = | 63 (1.020) | intergenic (‑262/+103) | cadB/cadC | putative lysine/cadaverine transporter/cadBA operon transcriptional activator | |||||
| * | ? | NC_000913 | = 1050545 | NA (NA) | 5 (0.080) | 5/298 | 10.6 | 7.4% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 4360293 = | 63 (1.020) | intergenic (‑262/+103) | cadB/cadC | putative lysine/cadaverine transporter/cadBA operon transcriptional activator | |||||
| * | ? | NC_000913 | = 291401 | NA (NA) | 5 (0.080) | 4/298 | 11.3 | 7.5% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 4360301 | 62 (1.010) | intergenic (‑270/+95) | cadB/cadC | putative lysine/cadaverine transporter/cadBA operon transcriptional activator | |||||