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 | 928,885 | 0 | A | C | 52.2% | 47.9 / 97.4 | 69 | L104R (CTG→CGG) | cydC | glutathione/L‑cysteine ABC exporter subunit CydC |
| * | NC_000913 | 4,604,344 | 0 | C | T | 42.6% | 46.5 / 36.7 | 54 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 753,125 | 0 | T | A | 41.7% | 36.2 / 21.3 | 36 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 2,001,918 | 0 | A | C | 35.3% | 47.0 / 12.2 | 34 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 753,114 | 0 | G | T | 34.2% | 75.1 / 10.4 | 38 | intergenic (‑319/+71) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 650,809 | 0 | T | G | 29.4% | 123.4 / 14.5 | 68 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 3,206,435 | 0 | C | T | 28.6% | 57.7 / 17.8 | 35 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.6% | 106.6 / 43.8 | 63 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,111,747 | 0 | G | T | 26.8% | 103.3 / 14.5 | 41 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 3,640,981 | 0 | C | T | 24.1% | 57.7 / 10.5 | 29 | F40F (TTC→TTT) | dtpB | dipeptide/tripeptide:H(+) symporter DtpB |
| * | NC_000913 | 4,429,984 | 0 | T | G | 22.4% | 105.4 / 15.1 | 49 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)symporter |
| * | NC_000913 | 2,326,450 | 0 | T | G | 21.9% | 63.7 / 11.3 | 32 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| 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 | = 4542690 | 38 (0.620) | 7 (0.120) | 6/260 | 5.0 | 13.8% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 52 (0.910) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 340035 = | NA (NA) | 6 (0.100) | 6/276 | 5.2 | 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 | 4373295 = | NA (NA) | 7 (0.120) | 5/258 | 5.4 | NA | noncoding (2/34 nt) | other | REP328b |
| ? | NC_000913 | 4374499 = | NA (NA) | noncoding (1/34 nt) | other | REP329a | |||||
| * | ? | NC_000913 | 3676183 = | NA (NA) | 3 (0.070) | 3/206 | 5.4 | NA | intergenic (+75/+107) | yhjE/yhjG | putative transporter YhjE/AsmA family protein YhjG |
| ? | NC_000913 | = 4235419 | NA (NA) | intergenic (+12/‑487) | pgi/yjbE | glucose‑6‑phosphate isomerase/uncharacterized protein YjbE | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 10 (0.170) | 5/262 | 5.4 | 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 | = 3335591 | 41 (0.750) | 3 (0.050) | 3/248 | 6.2 | 6.9% | coding (904/1260 nt) | murA | UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase |
| ? | NC_000913 | = 4344910 | NA (NA) | noncoding (1/34 nt) | other | REP327b | |||||
| * | ? | NC_000913 | 3949289 = | 73 (1.190) | 3 (0.050) | 3/272 | 6.6 | 4.0% | coding (681/1521 nt) | yifB | putative magnesium chelatase YifB |
| ? | NC_000913 | 3949342 = | 74 (1.240) | coding (628/1521 nt) | yifB | putative magnesium chelatase YifB | |||||
| * | ? | NC_000913 | = 319086 | 75 (1.220) | 3 (0.050) | 3/272 | 6.6 | 4.0% | coding (916/1326 nt) | rclA | putative pyridine nucleotide‑disulfide oxidoreductase RclA |
| ? | NC_000913 | 319090 = | 71 (1.190) | coding (912/1326 nt) | rclA | putative pyridine nucleotide‑disulfide oxidoreductase RclA | |||||
| * | ? | NC_000913 | 339849 = | NA (NA) | 3 (0.050) | 3/276 | 6.7 | 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 (0.050) | 3/276 | 6.7 | 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 | |||||