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 | 42.0% | 83.5 / 66.8 | 88 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 1,041,226 | 0 | G | T | 39.3% | 115.4 / 113.9 | 89 | E204* (GAG→TAG) | appA | periplasmic phosphoanhydride phosphatase/multiple inositol‑polyphosphate phosphatase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 37.5% | 112.5 / 98.5 | 96 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,326,450 | 0 | T | G | 33.9% | 99.0 / 50.4 | 65 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 1,825,061 | 0 | G | A | 33.3% | 62.8 / 15.1 | 39 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 3,556,205 | 0 | A | C | 32.5% | 73.9 / 13.6 | 40 | S215R (AGT→AGG) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 888,014 | 0 | T | G | 28.3% | 121.2 / 18.0 | 60 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 4,101,507 | 0 | T | G | 28.3% | 122.8 / 12.1 | 60 | intergenic (+77/‑183) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 4,209,827 | 0 | T | G | 28.3% | 77.2 / 16.5 | 46 | noncoding (54/76 nt) | gltV | tRNA‑Glu |
| * | NC_000913 | 3,206,435 | 0 | C | T | 27.9% | 75.3 / 20.5 | 43 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 445,558 | 0 | A | C | 26.3% | 71.5 / 18.4 | 39 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 3,206,444 | 0 | T | A | 26.3% | 71.7 / 10.5 | 38 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 372,640 | 0 | T | G | 25.0% | 157.7 / 17.9 | 68 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 3,926,366 | 0 | A | C | 24.2% | 216.4 / 31.0 | 95 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| * | NC_000913 | 29,496 | 0 | T | A | 24.1% | 124.2 / 19.0 | 54 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 1,550,663 | 0 | A | C | 23.9% | 163.3 / 16.3 | 67 | N68T (AAC→ACC) | fdnH | formate dehydrogenase N subunit beta |
| * | NC_000913 | 4,101,514 | 0 | G | T | 23.2% | 143.5 / 21.4 | 56 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 1,068,173 | 0 | T | G | 22.6% | 211.2 / 19.6 | 84 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| * | NC_000913 | 4,111,747 | 0 | G | T | 20.8% | 133.3 / 13.3 | 48 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| 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 | 375102 = | NA (NA) | 17 (0.210) | 5/216 | 6.7 | NA | noncoding (17/36 nt) | other | REP31d |
| ? | NC_000913 | 377351 = | NA (NA) | noncoding (16/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | 375001 = | NA (NA) | 8 (0.100) | 5/216 | 6.7 | NA | noncoding (17/36 nt) | other | REP31b |
| ? | NC_000913 | 377351 = | NA (NA) | noncoding (16/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | = 4542690 | 79 (0.760) | 5 (0.050) | 5/258 | 7.5 | 5.6% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 95 (0.970) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 85 (0.810) | 5 (0.050) | 5/258 | 7.5 | 5.4% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 95 (0.970) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 1297359 = | 129 (1.230) | 3 (0.030) | 3/254 | 8.6 | 2.5% | coding (763/2676 nt) | adhE | aldehyde‑alcohol dehydrogenase |
| ? | NC_000913 | = 1297355 | 113 (1.170) | coding (767/2676 nt) | adhE | aldehyde‑alcohol dehydrogenase | |||||
| * | ? | NC_000913 | 723100 = | 121 (1.160) | 3 (0.030) | 3/256 | 8.6 | 2.5% | coding (1315/2685 nt) | kdpD | sensory histidine kinase KdpD |
| ? | NC_000913 | = 723096 | 119 (1.230) | coding (1319/2685 nt) | kdpD | sensory histidine kinase KdpD | |||||
| * | ? | NC_000913 | = 1163010 | 115 (1.100) | 3 (0.030) | 3/272 | 8.9 | 2.6% | coding (373/642 nt) | lpoB | outer membrane lipoprotein ‑ activator of MrcB activity |
| ? | NC_000913 | 1163014 = | 115 (1.120) | coding (377/642 nt) | lpoB | outer membrane lipoprotein ‑ activator of MrcB activity | |||||