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 (highest frequency 20 of 42 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 225,964 | 0 | T | C | 56.6% | ‑0.7 / 198.4 | 173 | noncoding (206/2904 nt) | rrlH | 23S ribosomal RNA |
| * | NC_000913 | 2,933,965 | 0 | A | G | 52.6% | 42.9 / 173.6 | 133 | intergenic (‑277/‑270) | fucA/fucP | L‑fuculose‑phosphate aldolase/L‑fucose:H(+) symporter |
| * | NC_000913 | 2,334,057 | 0 | C | A | 48.5% | 34.3 / 113.2 | 68 | pseudogene (346/4605 nt) | yfaS | putative macroglobulin family protein, N‑terminal fragment |
| * | NC_000913 | 2,405,926 | 0 | G | A | 45.7% | 28.0 / 124.0 | 107 | P239L (CCG→CTG) | lrhA | DNA‑binding transcriptional dual regulator LrhA |
| * | NC_000913 | 1,968,157 | 0 | A | G | 45.5% | ‑3.0 / 76.6 | 55 | G115G (GGT→GGC) | cheB | protein‑glutamate methylesterase/protein glutamine deamidase |
| * | NC_000913 | 3,225,857 | 0 | A | G | 40.2% | 44.3 / 118.4 | 97 | T46A (ACT→GCT) | ebgC | DUF386 domain‑containing evolved beta‑D‑galactosidase subunit beta |
| * | NC_000913 | 3,556,207 | 0 | T | C | 40.0% | 30.3 / 13.9 | 30 | S215G (AGT→GGT) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 1,512,438 | 0 | A | G | 39.8% | 36.9 / 99.2 | 84 | N262S (AAC→AGC) | ydcS | putative ABC transporter periplasmic binding protein/polyhydroxybutyrate synthase |
| * | NC_000913 | 3,695,153 | 0 | A | G | 39.3% | 43.3 / 97.1 | 84 | G28G (GGT→GGC) | bcsA | cellulose synthase catalytic subunit |
| * | NC_000913 | 3,740,909 | 0 | T | G | 36.7% | 103.7 / 23.6 | 61 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate aminotransferase |
| * | NC_000913 | 4,111,752 | 0 | T | C | 35.4% | 66.7 / 15.4 | 48 | K155E (AAA→GAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,168,425 | 0 | T | G | 35.2% | 104.8 / 10.6 | 54 | noncoding (54/76 nt) | gltT | tRNA‑Glu |
| * | NC_000913 | 3,715,782 | 0 | G | A | 34.3% | 134.3 / 82.6 | 102 | L205F (CTT→TTT) | bisC | biotin sulfoxide reductase |
| * | NC_000913 | 4,098,155 | 0 | A | C | 33.3% | 160.3 / 24.0 | 87 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator RhaS |
| * | NC_000913 | 4,568,504 | 0 | T | G | 32.4% | 218.6 / 20.1 | 109 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,604,344 | 0 | C | T | 31.9% | 107.2 / 33.0 | 73 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 1,218,414 | 0 | A | C | 31.6% | 124.9 / 10.4 | 57 | T363P (ACC→CCC) | pdeG | putative c‑di‑GMP phosphodiesterase PdeG |
| * | NC_000913 | 650,809 | 0 | T | G | 31.1% | 84.3 / 15.7 | 45 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 1,377,140 | 0 | A | C | 30.4% | 125.0 / 10.1 | 56 | K103N (AAA→AAC) | ycjS | putative oxidoreductase YcjS |
| * | NC_000913 | 175,694 | 0 | T | G | 30.1% | 164.7 / 13.3 | 73 | G196G (GGT→GGG) | clcA | chloride:H(+) antiporter ClcA |
| 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 | 374922 = | NA (NA) | 8 (0.120) | 5/204 | 5.8 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377430 = | NA (NA) | intergenic (+119/+105) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 7 (0.100) | 3/226 | 7.3 | 9.2% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 69 (0.940) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 5 (0.060) | 4/262 | 7.5 | 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 | = 377529 | NA (NA) | 5 (0.060) | 4/270 | 7.6 | NA | intergenic (+218/+6) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB |
| ? | NC_000913 | = 4326342 | NA (NA) | intergenic (‑601/+57) | yjdN/yjdM | conserved protein YjdN/conserved protein YjdM | |||||
| * | ? | NC_000913 | 2340313 = | NA (NA) | 5 (0.060) +T |
4/276 | 7.7 | NA | intergenic (+24/+104) | ubiG/yfaL | bifunctional 3‑demethylubiquinone‑8 3‑O‑methyltransferase and 2‑octaprenyl‑6‑hydroxyphenol methylase/putative autotransporter adhesin YfaL |
| ? | NC_000913 | = 4614498 | NA (NA) | intergenic (+238/+182) | yjjV/yjjW | putative DNase YjjV/putative glycyl‑radical enzyme activating enzyme YjjW | |||||
| * | ? | NC_000913 | 340035 = | NA (NA) | 5 (0.060) | 4/276 | 7.7 | 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 | |||||