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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913_3_bme_pgi | 1,703,251 | 0 | A | T | 45.5% | ‑3.5 / 13.1 | 11 | intergenic (+17/+17) | add/ydgJ | adenosine deaminase/putative oxidoreductase |
| * | NC_000913_3_bme_pgi | 1,703,252 | 0 | A | T | 45.5% | ‑4.6 / 13.1 | 11 | intergenic (+18/+16) | add/ydgJ | adenosine deaminase/putative oxidoreductase |
| * | NC_000913_3_bme_pgi | 3,368,982 | 0 | G | C | 35.7% | 10.1 / 13.7 | 14 | intergenic (+28/+32) | yhcG/yhcH | DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily/DUF386 family protein, cupin superfamily |
| * | NC_000913_3_bme_pgi | 1,292,474 | 0 | T | . | 30.8% | 20.7 / 10.6 | 15 | intergenic (+109/+35) | galU/hns | glucose‑1‑phosphate uridylyltransferase/global DNA‑binding transcriptional dual regulator H‑NS |
| * | NC_000913_3_bme_pgi | 3,959,515 | 0 | T | A | 30.4% | 24.8 / 19.9 | 23 | intergenic (+70/+17) | ilvC/ppiC | ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C) |
| * | NC_000913_3_bme_pgi | 1,292,471 | 1 | . | A | 28.6% | 21.0 / 15.1 | 14 | intergenic (+106/+38) | galU/hns | glucose‑1‑phosphate uridylyltransferase/global DNA‑binding transcriptional dual regulator H‑NS |
| * | NC_000913_3_bme_pgi | 2,859,332 | 0 | T | G | 25.0% | 24.9 / 12.6 | 20 | L747R (CTC→CGC) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913_3_bme_pgi | 2,561,205 | 0 | A | T | 23.8% | 33.7 / 12.3 | 21 | intergenic (+307/‑163) | yffL/yffM | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| * | NC_000913_3_bme_pgi | 2,561,206 | 0 | A | T | 23.8% | 36.2 / 12.3 | 21 | intergenic (+308/‑162) | yffL/yffM | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| * | NC_000913_3_bme_pgi | 1,377,961 | 0 | G | . | 21.1% | 46.0 / 10.3 | 19 | coding (78/2268 nt) | ycjT | putative family 65 glycosyl hydrolase |
| 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_3_bme_pgi | = 2977673 | 11 (0.760) | 4 (0.290) | 3/248 | 1.6 | 30.2% | coding (1227/1263 nt) | lysA | diaminopimelate decarboxylase, PLP‑binding |
| ? | NC_000913_3_bme_pgi | = 2977698 | 8 (0.580) | coding (1202/1263 nt) | lysA | diaminopimelate decarboxylase, PLP‑binding | |||||
| * | ? | NC_000913_3_bme_pgi | 2968371 = | 14 (0.970) | 3 (0.220) | 3/248 | 1.6 | 18.0% | coding (64/2247 nt) | ptsP | PEP‑protein phosphotransferase enzyme I; GAF domain containing protein |
| ? | NC_000913_3_bme_pgi | 2968388 = | 14 (1.020) | coding (47/2247 nt) | ptsP | PEP‑protein phosphotransferase enzyme I; GAF domain containing protein | |||||
| * | ? | NC_000913_3_bme_pgi | = 1558066 | 20 (1.390) | 3 (0.220) | 3/250 | 1.7 | 12.4% | coding (952/987 nt) | ddpD | D,D‑dipeptide ABC transporter ATPase |
| ? | NC_000913_3_bme_pgi | = 1558080 | 23 (1.660) | coding (938/987 nt) | ddpD | D,D‑dipeptide ABC transporter ATPase | |||||