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 26 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,604,344 | 0 | C | T | 47.5% | 67.7 / 87.2 | 101 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 2,001,918 | 0 | A | C | 35.8% | 136.6 / 40.3 | 81 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,111,747 | 0 | G | T | 34.4% | 132.9 / 46.3 | 64 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 3,206,435 | 0 | C | T | 33.9% | 77.2 / 34.0 | 56 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 646,747 | 0 | T | G | 31.2% | 147.1 / 42.6 | 80 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 650,809 | 0 | T | G | 31.1% | 135.1 / 26.6 | 74 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 4,568,504 | 0 | T | G | 30.3% | 321.2 / 23.5 | 156 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 753,125 | 0 | T | A | 29.8% | 187.8 / 35.7 | 94 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.0% | 221.3 / 91.6 | 125 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 29,496 | 0 | T | A | 27.8% | 150.0 / 29.3 | 72 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 3,206,444 | 0 | T | A | 25.4% | 131.0 / 14.7 | 63 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 646,760 | 0 | T | C | 24.7% | 164.8 / 30.0 | 85 | K250K (AAA→AAG) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 2,628,625 | 0 | A | C | 24.1% | 129.6 / 15.7 | 54 | V105G (GTC→GGC) | pdeF | cyclic di‑GMP phosphodiesterase PdeF |
| * | NC_000913 | 2,729,391 | 0 | A | C | 23.8% | 147.4 / 11.5 | 63 | noncoding (54/76 nt) | gltW | tRNA‑Glu |
| * | NC_000913 | 1,550,663 | 0 | A | C | 23.0% | 187.2 / 10.9 | 74 | N68T (AAC→ACC) | fdnH | formate dehydrogenase N subunit beta |
| * | NC_000913 | 3,844,219 | 0 | T | G | 22.8% | 311.7 / 18.9 | 123 | F86V (TTT→GTT) | adeD | adenine deaminase |
| * | NC_000913 | 786,855 | 0 | A | C | 22.4% | 172.9 / 14.8 | 67 | G247G (GGT→GGG) | gpmA | 2,3‑bisphosphoglycerate‑dependent phosphoglycerate mutase |
| * | NC_000913 | 888,014 | 0 | T | G | 21.8% | 211.2 / 17.2 | 87 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 1,933,409 | 0 | T | C | 21.2% | 176.4 / 12.2 | 80 | E399G (GAA→GGA) | edd | phosphogluconate dehydratase |
| * | NC_000913 | 4,032,731 | 0 | T | G | 21.2% | 211.5 / 18.9 | 85 | G80G (GGT→GGG) | yigZ | IMPACT family member YigZ |
| 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 | = 374963 | NA (NA) | 5 (0.060) | 4/190 | 6.8 | NA | noncoding (33/34 nt) | other | REP31a |
| ? | NC_000913 | = 377487 | NA (NA) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 4542690 | 106 (0.820) | 8 (0.070) | 7/258 | 6.9 | 7.5% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 98 (0.810) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 2765420 = | 229 (1.760) | 4 (0.050) | 3/188 | 7.4 | 2.5% | intergenic (‑267/+93) | abpA/yfjM | CP4‑57 prophage; anti‑bacteriophage protein/CP4‑57 prophage; protein YfjM |
| ? | NC_000913 | = 2765411 | 158 (1.790) | intergenic (‑258/+102) | abpA/yfjM | CP4‑57 prophage; anti‑bacteriophage protein/CP4‑57 prophage; protein YfjM | |||||
| * | ? | NC_000913 | 2575544 = | 70 (0.540) | 4 (0.030) | 4/266 | 8.4 | 5.6% | coding (262/336 nt) | eutS | putative structural protein, ethanolamine utilization microcompartment |
| ? | NC_000913 | = 2575540 | 68 (0.540) | coding (266/336 nt) | eutS | putative structural protein, ethanolamine utilization microcompartment | |||||
| * | ? | NC_000913 | 1636785 = | 134 (1.030) | 3 (0.020) | 3/264 | 8.9 | 2.3% | coding (30/234 nt) | ynfO | Qin prophage; protein YnfO |
| ? | NC_000913 | = 1636781 | 130 (1.050) | coding (26/234 nt) | ynfO | Qin prophage; protein YnfO | |||||
| * | ? | NC_000913 | = 562376 | 180 (1.390) | 3 (0.020) | 3/272 | 9.1 | 1.7% | coding (41/984 nt) | sfmH | putative fimbrial adhesin protein SfmH |
| ? | NC_000913 | 562389 = | 170 (1.330) | coding (54/984 nt) | sfmH | putative fimbrial adhesin protein SfmH | |||||