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 | 4,568,504 | 0 | T | G | 35.9% | 287.6 / 18.0 | 144 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,111,747 | 0 | G | T | 32.6% | 103.5 / 26.8 | 49 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,296,060 | 0 | C | T | 31.4% | 200.0 / 104.6 | 121 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,604,344 | 0 | C | T | 30.4% | 206.2 / 59.7 | 125 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 2,001,918 | 0 | A | C | 28.1% | 184.4 / 30.3 | 82 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 650,809 | 0 | T | G | 25.4% | 144.2 / 11.8 | 59 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 753,125 | 0 | T | A | 22.4% | 241.0 / 32.8 | 98 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 1,645,034 | 0 | A | C | 20.6% | 243.9 / 11.2 | 92 | intergenic (‑132/+85) | rem/hokD | Qin prophage; protein Rem/Qin prophage; toxic protein HokD |
| 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 (0.050) | 4/190 | 6.3 | 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 | 374921 = | NA (NA) | 6 (0.070) | 4/190 | 6.3 | NA | intergenic (+40/‑538) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377531 = | NA (NA) | intergenic (+220/+4) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 4542690 | 94 (0.760) | 7 (0.060) | 6/258 | 6.7 | 6.0% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 132 (1.150) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 1947995 = | 138 (1.120) | 4 (0.040) | 4/250 | 7.5 | 3.3% | coding (157/741 nt) | yebC | putative transcriptional regulator YebC |
| ? | NC_000913 | 1948948 = | 112 (1.000) | coding (1575/1773 nt) | aspS | aspartate‑‑tRNA ligase | |||||
| * | ? | NC_000913 | = 4373296 | NA (NA) | 4 (0.040) | 4/256 | 7.6 | NA | noncoding (1/34 nt) | other | REP328b |
| ? | NC_000913 | = 4374496 | NA (NA) | intergenic (‑262/+133) | yjeJ/epmB | protein YjeJ/lysine 2,3‑aminomutase | |||||
| * | ? | NC_000913 | = 1217897 | 140 (1.140) | 4 (0.030) | 4/272 | 7.8 | 2.8% | coding (570/1524 nt) | pdeG | putative c‑di‑GMP phosphodiesterase PdeG |
| ? | NC_000913 | 1217904 = | 141 (1.160) | coding (577/1524 nt) | pdeG | putative c‑di‑GMP phosphodiesterase PdeG | |||||
| * | ? | NC_000913 | 76618 = | 60 (0.490) | 4 (0.030) | 3/258 | 8.1 | 5.8% | coding (682/1656 nt) | sgrR | DNA‑binding transcriptional dual regulator SgrR |
| ? | NC_000913 | 76749 = | 73 (0.630) | coding (551/1656 nt) | sgrR | DNA‑binding transcriptional dual regulator SgrR | |||||
| * | ? | NC_000913 | = 3941949 | 78 (0.630) | 3 (0.020) | 3/272 | 8.4 | 3.7% | noncoding (142/1542 nt) | rrsC | 16S ribosomal RNA |
| ? | NC_000913 | 3941953 = | 78 (0.640) | noncoding (146/1542 nt) | rrsC | 16S ribosomal RNA | |||||