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 | 4,604,344 | 0 | C | T | 49.2% | 41.9 / 52.4 | 68 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 1,825,061 | 0 | G | A | 39.3% | 34.2 / 11.3 | 28 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 4,111,747 | 0 | G | T | 34.6% | 47.7 / 17.4 | 26 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 888,014 | 0 | T | G | 33.3% | 74.0 / 10.3 | 42 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 175,694 | 0 | T | G | 31.8% | 76.1 / 13.7 | 44 | G196G (GGT→GGG) | clcA | chloride:H(+) antiporter ClcA |
| * | NC_000913 | 2,001,918 | 0 | A | C | 31.7% | 72.6 / 10.3 | 41 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,568,504 | 0 | T | G | 29.5% | 171.9 / 14.6 | 88 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.2% | 154.7 / 60.3 | 85 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 753,125 | 0 | T | A | 26.0% | 114.9 / 18.2 | 50 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 501,564 | 0 | A | C | 24.2% | 61.6 / 14.4 | 33 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 729,659 | 0 | T | G | 24.2% | 128.1 / 15.2 | 62 | V26G (GTA→GGA) | rhsC | rhs element protein RhsC |
| * | NC_000913 | 2,326,450 | 0 | T | G | 24.0% | 103.5 / 22.7 | 50 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 1,550,663 | 0 | A | C | 23.1% | 114.5 / 11.0 | 52 | N68T (AAC→ACC) | fdnH | formate dehydrogenase N subunit beta |
| * | NC_000913 | 3,401,459 | 0 | T | C | 22.6% | 123.4 / 11.2 | 62 | D625G (GAT→GGT) | csrD | regulator of CsrB and CsrC decay |
| * | NC_000913 | 3,926,366 | 0 | A | C | 22.4% | 176.5 / 12.5 | 76 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| * | NC_000913 | 4,101,514 | 0 | G | T | 21.3% | 125.1 / 10.9 | 47 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 4,287,719 | 0 | T | A | 20.0% | 174.0 / 16.6 | 70 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| 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 | 4521063 = | 96 (1.270) | 4 (0.060) | 3/258 | 6.7 | 4.2% | coding (958/1350 nt) | yjhF | KpLE2 phage‑like element; putative transporter YjhF |
| ? | NC_000913 | = 4521059 | 92 (1.310) | coding (962/1350 nt) | yjhF | KpLE2 phage‑like element; putative transporter YjhF | |||||
| * | ? | NC_000913 | 1032543 = | 45 (0.600) | 3 (0.040) | 3/270 | 6.9 | 6.5% | coding (405/1119 nt) | hyaA | hydrogenase 1 small subunit |
| ? | NC_000913 | = 1032539 | 42 (0.570) | coding (401/1119 nt) | hyaA | hydrogenase 1 small subunit | |||||
| * | ? | NC_000913 | 1979486 = | 98 (1.300) | 3 (0.040) | 3/278 | 7.0 | 3.0% | intergenic (‑271/‑267) | insA‑5/uspC | IS1 protein InsA/universal stress protein C |
| ? | NC_000913 | = 2102943 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||