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 25 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 | 38.5% | 94.0 / 49.2 | 78 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,296,060 | 0 | C | T | 36.3% | 112.7 / 89.8 | 91 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,001,918 | 0 | A | C | 35.7% | 80.4 / 28.0 | 56 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 650,809 | 0 | T | G | 35.4% | 68.1 / 17.8 | 48 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 29,496 | 0 | T | A | 32.1% | 103.3 / 29.1 | 56 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 4,111,747 | 0 | G | T | 32.1% | 126.7 / 37.8 | 56 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,568,504 | 0 | T | G | 31.7% | 145.1 / 13.0 | 83 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 753,125 | 0 | T | A | 30.6% | 129.6 / 22.3 | 63 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 4,101,507 | 0 | T | G | 28.2% | 133.3 / 13.5 | 71 | intergenic (+77/‑183) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 445,558 | 0 | A | C | 27.3% | 74.1 / 22.6 | 44 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 888,014 | 0 | T | G | 27.3% | 132.8 / 10.8 | 66 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 4,111,752 | 0 | T | C | 26.1% | 135.2 / 13.2 | 69 | K155E (AAA→GAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 1,550,663 | 0 | A | C | 25.6% | 83.7 / 12.0 | 43 | N68T (AAC→ACC) | fdnH | formate dehydrogenase N subunit beta |
| * | NC_000913 | 4,628,649 | 0 | A | C | 25.0% | 127.0 / 14.4 | 60 | intergenic (+102/+206) | nadR/ettA | DNA‑binding transcriptional repressor/NMN adenylyltransferase NadR/energy‑dependent translational throttle protein EttA |
| * | NC_000913 | 2,326,450 | 0 | T | G | 24.3% | 134.7 / 35.7 | 70 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 2,628,625 | 0 | A | C | 24.0% | 96.6 / 17.5 | 50 | V105G (GTC→GGC) | pdeF | cyclic di‑GMP phosphodiesterase PdeF |
| * | NC_000913 | 4,429,984 | 0 | T | G | 23.7% | 126.8 / 10.5 | 59 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)symporter |
| * | NC_000913 | 4,032,731 | 0 | T | G | 23.6% | 112.0 / 12.2 | 56 | G80G (GGT→GGG) | yigZ | IMPACT family member YigZ |
| * | NC_000913 | 3,404,215 | 0 | T | G | 23.3% | 125.2 / 21.5 | 60 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 3,240,985 | 0 | T | G | 22.9% | 131.6 / 11.5 | 61 | S348A (TCT→GCT) | sstT | serine/threonine:Na(+) symporter |
| 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 | 4542682 = | 55 (0.670) | 13 (0.170) | 11/258 | 4.3 | 15.0% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 96 (1.250) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 226608 = | NA (NA) | 6 (0.080) | 5/262 | 6.5 | NA | noncoding (850/2904 nt) | rrlH | 23S ribosomal RNA |
| ? | NC_000913 | 226686 = | NA (NA) | noncoding (928/2904 nt) | rrlH | 23S ribosomal RNA | |||||
| * | ? | NC_000913 | = 3657115 | 115 (1.400) | 3 (0.040) | 3/260 | 7.5 | 2.6% | coding (121/573 nt) | hdeD | acid‑resistance membrane protein |
| ? | NC_000913 | = 3657505 | 113 (1.460) | coding (511/573 nt) | hdeD | acid‑resistance membrane protein | |||||
| * | ? | NC_000913 | = 2382550 | 107 (1.300) | 3 (0.040) | 3/260 | 7.5 | 2.9% | intergenic (+25/‑163) | rbn/elaD | ribonuclease BN/protease ElaD |
| ? | NC_000913 | = 2382557 | 98 (1.270) | intergenic (+32/‑156) | rbn/elaD | ribonuclease BN/protease ElaD | |||||
| * | ? | NC_000913 | 2683552 = | 89 (1.080) | 4 (0.050) | 3/264 | 7.6 | 4.8% | coding (690/1194 nt) | yphH | putative DNA‑binding transcriptional regulator, NAGC‑like |
| ? | NC_000913 | 2683644 = | 72 (0.920) | coding (782/1194 nt) | yphH | putative DNA‑binding transcriptional regulator, NAGC‑like | |||||
| * | ? | NC_000913 | 2120316 = | 86 (1.050) | 4 (0.050) | 3/262 | 7.6 | 4.9% | coding (1239/1395 nt) | wcaJ | undecaprenyl‑phosphate glucose phosphotransferase |
| ? | NC_000913 | 2120358 = | 73 (0.940) | coding (1197/1395 nt) | wcaJ | undecaprenyl‑phosphate glucose phosphotransferase | |||||
| * | ? | NC_000913 | = 2973910 | 79 (0.960) | 3 (0.040) | 3/270 | 7.7 | 4.2% | coding (2105/2160 nt) | aas | acyltransferase |
| ? | NC_000913 | = 2974099 | 59 (0.740) | coding (1916/2160 nt) | aas | acyltransferase | |||||
| * | ? | NC_000913 | 1192544 = | 45 (0.550) | 4 (0.050) | 3/268 | 7.7 | 7.9% | coding (88/642 nt) | hflD | lysogenization regulator |
| ? | NC_000913 | 1192602 = | 49 (0.620) | coding (30/642 nt) | hflD | lysogenization regulator | |||||
| * | ? | NC_000913 | = 2345691 | 68 (0.830) | 3 (0.040) | 3/274 | 7.8 | 3.7% | coding (827/2286 nt) | nrdA | ribonucleoside‑diphosphate reductase 1 subunit alpha |
| ? | NC_000913 | 2345933 = | 89 (1.090) | coding (1069/2286 nt) | nrdA | ribonucleoside‑diphosphate reductase 1 subunit alpha | |||||
| * | ? | NC_000913 | = 449358 | 73 (0.890) | 3 (0.040) | 3/276 | 7.8 | 3.9% | coding (1284/1992 nt) | cyoB | cytochrome bo3 ubiquinol oxidase subunit 1 |
| ? | NC_000913 | 449362 = | 74 (0.900) | coding (1280/1992 nt) | cyoB | cytochrome bo3 ubiquinol oxidase subunit 1 | |||||