mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 1106 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 357,890 | 0 | C | A | 47.5% | 37.1 / 45.1 | 61 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 29,486 | 0 | C | A | 45.8% | 135.0 / 95.4 | 118 | intergenic (+291/‑165) | dapB/carA | dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase |
| * | NC_000913 | 29,496 | 0 | T | A | 45.4% | 161.2 / 90.5 | 130 | intergenic (+301/‑155) | dapB/carA | dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase |
| * | NC_000913 | 354,288 | 0 | T | G | 44.2% | 167.0 / 55.6 | 113 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NC_000913 | 1,222,233 | 0 | G | A | 42.9% | 111.8 / 50.1 | 91 | pseudogene (60/75 nt) | ycgH | pseudogene; putative ATP‑binding component of a transport system |
| * | NC_000913 | 213,341 | 0 | A | G | 42.6% | 140.6 / 41.8 | 101 | G337G (GGA→GGG) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | NC_000913 | 3,206,435 | 0 | C | T | 42.4% | 81.2 / 65.5 | 86 | intergenic (‑179/‑28) | ttdR/ttdA | transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit |
| * | NC_000913 | 646,747 | 0 | T | G | 41.4% | 139.6 / 50.4 | 99 | T255P (ACC→CCC) | citG | 2‑(5''‑triphosphoribosyl)‑3'‑dephosphocoenzyme‑A synthase |
| * | NC_000913 | 2,781,645 | 0 | A | C | 40.8% | 200.4 / 37.2 | 129 | V361G (GTT→GGT) | ypjA | adhesin‑like autotransporter |
| * | NC_000913 | 941,713 | 0 | T | G | 40.6% | 150.8 / 38.6 | 96 | V252G (GTG→GGG) | dmsA | dimethyl sulfoxide reductase, anaerobic, subunit A |
| * | NC_000913 | 5,159 | 0 | G | A | 40.4% | 128.7 / 75.6 | 110 | intergenic (+139/‑75) | thrC/yaaX | L‑threonine synthase/DUF2502 family putative periplasmic protein |
| * | NC_000913 | 1,574,051 | 0 | G | T | 40.2% | 166.2 / 46.1 | 102 | V384V (GTC→GTA) | pqqL | putative periplasmic M16 family zinc metalloendopeptidase |
| * | NC_000913 | 1,621,118 | 0 | A | C | 40.0% | 164.3 / 18.3 | 96 | V7G (GTG→GGG) | eamA | cysteine and O‑acetyl‑L‑serine efflux system |
| * | NC_000913 | 786,855 | 0 | A | C | 39.7% | 232.1 / 27.2 | 126 | G247G (GGT→GGG) | gpmA | phosphoglyceromutase 1 |
| * | NC_000913 | 2,326,450 | 0 | T | G | 39.6% | 198.6 / 23.9 | 108 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 4,604,344 | 0 | C | T | 39.3% | 144.9 / 63.9 | 112 | S62F (TCT→TTT) | bglJ | bgl operon transcriptional activator |
| * | NC_000913 | 4,604,350 | 0 | C | T | 39.3% | 157.9 / 52.8 | 112 | S64F (TCT→TTT) | bglJ | bgl operon transcriptional activator |
| * | NC_000913 | 2,628,625 | 0 | A | C | 39.1% | 198.6 / 31.7 | 116 | V105G (GTC→GGC) | yfgF | cyclic‑di‑GMP phosphodiesterase, anaerobic |
| * | NC_000913 | 3,508,662 | 0 | T | A | 38.7% | 181.3 / 27.5 | 94 | E384D (GAA→GAT) | yhfW | phosphopentomutase‑related metalloenzyme superfamily protein |
| * | NC_000913 | 4,610,466 | 0 | T | G | 38.5% | 176.4 / 17.4 | 96 | G351G (GGT→GGG) | prfC | peptide chain release factor RF‑3 |
| 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 | = 1207805 | 99 (0.740) | 35 (0.290) | 31/266 | 8.7 | 27.1% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 100 (0.840) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 94 (0.700) | 33 (0.280) | 30/266 | 9.0 | 26.2% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 102 (0.850) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 4542690 | 153 (1.140) | 12 (0.100) | 12/280 | 17.8 | 7.8% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 139 (1.110) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4542682 = | 150 (1.120) | 8 (0.060) | 8/280 | 20.5 | 5.4% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 142 (1.130) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 1722616 = | 120 (0.900) | 3 (0.020) | 3/276 | 24.8 | 2.6% | coding (496/2013 nt) | ydhK | putative efflux protein (PET) component of YdhJK efflux pump |
| ? | NC_000913 | = 1722612 | 112 (0.900) | coding (492/2013 nt) | ydhK | putative efflux protein (PET) component of YdhJK efflux pump | |||||