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 | 47.1% | 49.7 / 52.0 | 68 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,111,752 | 0 | T | C | 40.5% | 51.7 / 13.6 | 42 | K155E (AAA→GAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,296,060 | 0 | C | T | 39.3% | 82.6 / 91.9 | 84 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,111,747 | 0 | G | T | 37.9% | 44.1 / 19.4 | 29 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,246,943 | 0 | A | G | 33.7% | 99.6 / 91.8 | 95 | T54A (ACG→GCG) | malK | maltose ABC transporter ATP binding subunit |
| * | NC_000913 | 646,747 | 0 | T | G | 33.3% | 64.0 / 21.0 | 42 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 753,125 | 0 | T | A | 32.4% | 64.7 / 10.5 | 34 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 4,101,514 | 0 | G | T | 28.2% | 96.0 / 13.4 | 39 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 4,429,984 | 0 | T | G | 26.7% | 93.6 / 11.0 | 45 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)symporter |
| * | NC_000913 | 646,760 | 0 | T | C | 24.4% | 90.3 / 12.4 | 45 | K250K (AAA→AAG) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 4,098,155 | 0 | A | C | 23.8% | 216.4 / 18.6 | 101 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator RhaS |
| * | NC_000913 | 4,580,095 | 0 | A | C | 22.9% | 103.7 / 12.5 | 48 | G456G (GGT→GGG) | hsdS | type I restriction enzyme EcoKI specificity protein |
| * | NC_000913 | 1,068,173 | 0 | T | G | 21.7% | 135.9 / 12.0 | 60 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| * | NC_000913 | 2,326,450 | 0 | T | G | 21.3% | 110.0 / 11.6 | 47 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 4,287,719 | 0 | T | A | 20.9% | 172.3 / 14.7 | 67 | 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 | = 4542690 | 46 (0.630) | 11 (0.160) | 10/258 | 3.6 | 16.4% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 69 (1.020) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 50 (0.690) | 6 (0.090) | 6/258 | 4.8 | 9.3% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 71 (1.050) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 3484544 = | 59 (0.810) | 4 (0.060) | 4/256 | 5.6 | 7.0% | coding (55/870 nt) | prkB | putative phosphoribulokinase |
| ? | NC_000913 | = 3484540 | 51 (0.760) | coding (51/870 nt) | prkB | putative phosphoribulokinase | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 5 (0.080) | 3/224 | 5.6 | 8.5% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 54 (0.920) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | = 1116315 | 66 (0.910) | 3 (0.040) | 3/276 | 6.3 | 3.9% | coding (268/921 nt) | lpxL | lauroyl acyltransferase |
| ? | NC_000913 | 2560942 = | 80 (1.100) | intergenic (+44/‑426) | yffL/yffM | CPZ‑55 prophage; uncharacterized protein YffL/CPZ‑55 prophage; uncharacterized protein YffM | |||||
| * | ? | NC_000913 | = 603667 | 76 (1.050) | 4 (0.060) | 3/270 | 6.3 | 5.2% | coding (997/1248 nt) | ybdG | miniconductance mechanosensitive channel YbdG |
| ? | NC_000913 | 603672 = | 72 (1.010) | coding (992/1248 nt) | ybdG | miniconductance mechanosensitive channel YbdG | |||||