mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 3,556,207 | 0 | T | C | 40.9% | 19.5 / 10.7 | 22 | S215G (AGT→GGT) ‡ | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 3,556,205 | 0 | A | C | 38.1% | 21.3 / 10.2 | 21 | S215R (AGT→AGG) ‡ | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 445,558 | 0 | A | C | 33.3% | 38.6 / 15.6 | 30 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 4,429,984 | 0 | T | G | 29.7% | 62.9 / 10.2 | 37 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)symporter |
| * | NC_000913 | 2,001,918 | 0 | A | C | 29.6% | 42.8 / 10.0 | 27 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 3,926,366 | 0 | A | C | 26.9% | 95.3 / 15.2 | 52 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| * | NC_000913 | 2,326,450 | 0 | T | G | 25.0% | 56.9 / 13.9 | 32 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 4,287,719 | 0 | T | A | 24.3% | 79.9 / 14.4 | 37 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| * | NC_000913 | 3,401,459 | 0 | T | C | 23.8% | 82.5 / 10.5 | 42 | D625G (GAT→GGT) | csrD | regulator of CsrB and CsrC decay |
| * | NC_000913 | 3,003,480 | 0 | A | G | 20.9% | 87.9 / 12.1 | 43 | G289G (GGA→GGG) | xdhB | putative xanthine dehydrogenase FAD‑binding subunit XdhB |
| * | NC_000913 | 1,577,123 | 0 | A | C | 20.0% | 149.0 / 13.0 | 65 | V166G (GTA→GGA) | yddB | putative TonB‑dependent receptor |
| 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 | = 374963 | NA (NA) | 4 (0.120) | 4/190 | 3.4 | NA | noncoding (33/34 nt) | other | REP31a |
| ? | NC_000913 | = 377487 | NA (NA) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 1428224 | 38 (0.840) | 10 (0.220) +TGGTC |
3/252 | 4.8 | 20.6% | noncoding (571/1196 nt) | IS5 | repeat region |
| ? | NC_000913 | 2066784 = | NA (NA) | noncoding (570/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 1300061 | NA (NA) | 13 (0.280) +CAGAC |
3/252 | 4.8 | NA | noncoding (563/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 1300062 = | NA (NA) | noncoding (564/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 274579 | NA (NA) | 23 (0.500) +TGGTC |
3/252 | 4.8 | NA | noncoding (571/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274580 = | NA (NA) | noncoding (570/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 3130709 = | NA (NA) | 3 (0.060) | 3/272 | 5.1 | NA | noncoding (564/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 3366183 = | NA (NA) | noncoding (568/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 2437298 = | 43 (0.900) | 3 (0.060) | 3/274 | 5.1 | 8.0% | coding (554/1137 nt) | pdxB | erythronate‑4‑phosphate dehydrogenase |
| ? | NC_000913 | 3677077 = | 26 (0.550) | coding (1274/2061 nt) | yhjG | AsmA family protein YhjG | |||||
| * | ? | NC_000913 | 1282434 = | 40 (0.840) | 3 (0.060) | 3/276 | 5.1 | 6.0% | coding (2571/3744 nt) | narG | nitrate reductase A subunit alpha |
| ? | NC_000913 | 3029329 = | 54 (1.130) | coding (1603/1920 nt) | ygfT | fused putative oxidoreductase, Fe‑S subunit and nucleotide‑binding subunit | |||||