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 | ||
| * | CP009273 | 2,170,734 | 0 | G | T | 39.8% | 48.4 / 59.6 | 103 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 161,056 | 0 | C | G | 34.2% | 64.3 / 15.2 | 41 | intergenic (+35/‑161) | hrpB/mrcB | putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase |
| * | CP009273 | 2,178,908 | 0 | T | G | 31.2% | 157.0 / 16.9 | 96 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | CP009273 | 104,041 | 0 | G | T | 30.5% | 100.1 / 21.5 | 60 | intergenic (+80/‑151) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 2,170,724 | 0 | G | T | 27.8% | 77.6 / 11.3 | 93 | intergenic (‑41/+267) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 4,402,596 | 0 | T | G | 25.6% | 177.4 / 14.5 | 87 | V131V (GTT→GTG) | yjfM | DUF1190 family protein |
| * | CP009273 | 104,042 | 0 | A | T | 25.4% | 150.7 / 15.3 | 59 | intergenic (+81/‑150) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 772,664 | 0 | A | C | 25.0% | 127.2 / 10.7 | 72 | K289N (AAA→AAC) | tolA | membrane anchored protein in TolA‑TolQ‑TolR complex |
| * | CP009273 | 2,170,746 | 0 | C | A | 23.9% | 172.2 / 22.9 | 116 | intergenic (‑63/+245) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 4,402,598 | 0 | C | G | 23.5% | 226.4 / 14.7 | 87 | S132C (TCT→TGT) | yjfM | DUF1190 family protein |
| * | CP009273 | 2,998,305 | 0 | G | T | 22.9% | 192.9 / 12.8 | 109 | Q281K (CAA→AAA) | ygeV | putative sigma‑54‑interacting transcriptional activator |
| * | CP009273 | 2,170,728 | 0 | T | A | 22.9% | 214.7 / 16.3 | 96 | intergenic (‑45/+263) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 3,596,982 | 0 | C | G | 22.7% | 217.3 / 12.1 | 97 | E208Q (GAA→CAA) | ftsY | Signal Recognition Particle (SRP) receptor |
| * | CP009273 | 4,375,474 | 0 | G | T | 21.5% | 212.6 / 15.7 | 109 | D89Y (GAT→TAT) | yjeN | uncharacterized protein |
| * | CP009273 | 1,160,002 | 0 | A | T | 20.6% | 237.3 / 11.6 | 105 | D151V (GAT→GTT) | nagZ | beta N‑acetyl‑glucosaminidase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 4532499 = | 85 (0.660) | 7 (0.060) | 4/252 | 8.3 | 7.9% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 83 (0.700) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | 4059163 = | 128 (1.000) | 4 (0.030) | 4/252 | 8.3 | 3.4% | intergenic (‑37/+6) | yihO/yihP | putative transporter/putative transporter |
| ? | CP009273 | = 4059159 | 107 (0.900) | intergenic (‑33/+10) | yihO/yihP | putative transporter/putative transporter | |||||
| * | ? | CP009273 | = 4532507 | 81 (0.630) | 4 (0.030) | 3/252 | 9.0 | 4.8% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 83 (0.700) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | 1919121 = | 113 (0.880) | 3 (0.020) | 3/262 | 9.2 | 2.4% | coding (106/375 nt) | yobA | CopC family protein |
| ? | CP009273 | 2755920 = | 130 (1.050) | coding (980/2190 nt) | yfjK | DEAD/H helicase‑like protein, CP4‑57 putative defective prophage | |||||
| * | ? | CP009273 | 48182 = | 135 (1.060) | 7 (0.060) | 3/262 | 9.2 | 4.2% | coding (414/1863 nt) | kefC | potassium:proton antiporter |
| ? | CP009273 | = 4462484 | 186 (1.500) | intergenic (‑134/+147) | pyrL/yjgH | pyrBI operon leader peptide/UPF0131 family protein | |||||
| * | ? | CP009273 | = 1141498 | NA (NA) | 3 (0.020) | 3/266 | 9.3 | 1.7% | coding (554/585 nt) | yceF | Maf‑like protein |
| ? | CP009273 | 1141504 = | 175 (1.390) | coding (548/585 nt) | yceF | Maf‑like protein | |||||
| * | ? | CP009273 | = 2254738 | 192 (1.500) | 3 (0.020) | 3/268 | 9.4 | 1.5% | coding (152/1692 nt) | fruA | fused fructose‑specific PTS enzymes: IIBcomponent/IIC components |
| ? | CP009273 | 2254747 = | 195 (1.540) | coding (143/1692 nt) | fruA | fused fructose‑specific PTS enzymes: IIBcomponent/IIC components | |||||
| * | ? | CP009273 | = 1035961 | 145 (1.130) | 3 (0.020) | 3/268 | 9.4 | 2.0% | coding (61/93 nt) | cbdX | putative cytochrome bd‑II oxidase subunit |
| ? | CP009273 | 1036045 = | NA (NA) | intergenic (+52/‑28) | cbdX/appA | putative cytochrome bd‑II oxidase subunit/phosphoanhydride phosphorylase | |||||