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 | 38.6% | 52.2 / 25.6 | 44 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,556,205 | 0 | A | C | 36.7% | 36.6 / 10.1 | 30 | S215R (AGT→AGG) ‡ | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 4,111,747 | 0 | G | T | 36.4% | 42.9 / 11.9 | 22 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 29,496 | 0 | T | A | 33.3% | 74.5 / 22.1 | 42 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 3,556,207 | 0 | T | C | 31.2% | 46.4 / 10.2 | 32 | S215G (AGT→GGT) ‡ | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 753,114 | 0 | G | T | 29.4% | 126.7 / 14.1 | 51 | intergenic (‑319/+71) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 501,564 | 0 | A | C | 28.6% | 49.0 / 18.2 | 35 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 2,326,450 | 0 | T | G | 28.1% | 78.1 / 38.4 | 57 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 445,558 | 0 | A | C | 27.8% | 53.5 / 15.6 | 36 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 753,125 | 0 | T | A | 26.9% | 108.0 / 15.7 | 52 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 3,206,435 | 0 | C | T | 26.5% | 62.9 / 11.8 | 34 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,001,918 | 0 | A | C | 25.6% | 69.2 / 10.3 | 39 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,296,060 | 0 | C | T | 25.3% | 169.7 / 50.9 | 83 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,877,664 | 0 | A | G | 24.5% | 96.0 / 15.9 | 53 | intergenic (+46/+905) | iap/cas2 | alkaline phosphatase isozyme conversion protein/CRISPR‑associated endoribonuclease Cas2 |
| * | NC_000913 | 753,105 | 0 | A | T | 22.8% | 137.7 / 16.1 | 57 | intergenic (‑310/+80) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 2,168,966 | 0 | A | C | 22.8% | 157.7 / 11.5 | 79 | I85I (ATA→ATC) | yegS | lipid kinase |
| * | NC_000913 | 2,628,625 | 0 | A | C | 22.4% | 97.6 / 10.7 | 49 | V105G (GTC→GGC) | pdeF | cyclic di‑GMP phosphodiesterase PdeF |
| * | NC_000913 | 1,645,034 | 0 | A | C | 21.1% | 97.8 / 13.3 | 52 | intergenic (‑132/+85) | rem/hokD | Qin prophage; protein Rem/Qin prophage; toxic protein HokD |
| * | NC_000913 | 3,404,215 | 0 | T | G | 20.0% | 109.8 / 11.4 | 55 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA 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 | 375001 = | NA (NA) | 12 (0.200) | 9/216 | 3.8 | NA | noncoding (17/36 nt) | other | REP31b |
| ? | NC_000913 | 377351 = | NA (NA) | noncoding (16/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | 375102 = | NA (NA) | 5 (0.080) | 5/216 | 5.3 | NA | noncoding (17/36 nt) | other | REP31d |
| ? | NC_000913 | 377351 = | NA (NA) | noncoding (16/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | 375203 = | NA (NA) | 4 (0.070) | 4/216 | 5.7 | NA | noncoding (17/36 nt) | other | REP31f |
| ? | NC_000913 | 377351 = | NA (NA) | noncoding (16/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 5 (0.070) | 5/260 | 6.0 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377329 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 3913627 | 99 (1.290) | 3 (0.040) | 3/272 | 7.2 | 3.0% | coding (42/1830 nt) | glmS | L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| ? | NC_000913 | 3913631 = | 99 (1.310) | coding (38/1830 nt) | glmS | L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase | |||||
| * | ? | NC_000913 | = 3655718 | 100 (1.310) | 3 (0.040) | 3/272 | 7.2 | 3.2% | coding (185/648 nt) | yhiD | inner membrane protein YhiD |
| ? | NC_000913 | 3655724 = | 84 (1.110) | coding (179/648 nt) | yhiD | inner membrane protein YhiD | |||||
| * | ? | NC_000913 | 340035 = | NA (NA) | 3 (0.040) | 3/274 | 7.3 | NA | coding (243/297 nt) | yahH | putative uncharacterized protein YahH |
| ? | NC_000913 | 377322 = | NA (NA) | intergenic (+11/+213) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 339849 = | NA (NA) | 3 (0.040) | 3/274 | 7.3 | NA | coding (57/297 nt) | yahH | putative uncharacterized protein YahH |
| ? | NC_000913 | 377322 = | NA (NA) | intergenic (+11/+213) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 339756 = | NA (NA) | 3 (0.040) | 3/274 | 7.3 | NA | intergenic (+13/‑37) | yahG/yahH | DUF1116 domain‑containing protein YahG/putative uncharacterized protein YahH |
| ? | NC_000913 | 377322 = | NA (NA) | intergenic (+11/+213) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||