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 120 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,326,450 | 0 | T | G | 52.5% | 44.5 / 57.3 | 40 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 689,514 | 0 | A | C | 51.3% | 44.9 / 56.7 | 37 | G456G (GGT→GGG) | lnt | apolipoprotein N‑acyltransferase |
| * | NC_000913 | 366,526 | 0 | T | G | 46.7% | 61.3 / 13.9 | 45 | T329P (ACC→CCC) | lacI | lactose‑inducible lac operon transcriptional repressor |
| * | NC_000913 | 4,137,615 | 0 | T | G | 46.3% | 43.8 / 12.2 | 41 | T15P (ACC→CCC) | yijF | DUF1287 family protein |
| * | NC_000913 | 1,487,163 | 0 | C | T | 45.0% | 36.2 / 19.6 | 41 | intergenic (+200/‑72) | hrpA/ydcF | putative ATP‑dependent helicase/DUF218 superfamily protein, SAM‑binding |
| * | NC_000913 | 1,163,377 | 0 | G | T | 43.8% | 29.6 / 16.9 | 32 | E40* (GAA→TAA) | thiK | thiamine kinase |
| * | NC_000913 | 364,526 | 0 | C | A | 43.6% | 49.1 / 16.2 | 39 | G594C (GGC→TGC) | lacZ | beta‑D‑galactosidase |
| * | NC_000913 | 599,576 | 0 | T | G | 43.4% | 80.0 / 13.5 | 54 | V288G (GTG→GGG) | cusA | copper/silver efflux system, membrane component |
| * | NC_000913 | 941,713 | 0 | T | G | 43.1% | 77.5 / 20.5 | 51 | V252G (GTG→GGG) | dmsA | dimethyl sulfoxide reductase, anaerobic, subunit A |
| * | NC_000913 | 4,287,710 | 0 | G | A | 42.5% | 53.7 / 22.3 | 47 | intergenic (‑339/‑54) | acs/nrfA | acetyl‑CoA synthetase/nitrite reductase, formate‑dependent, cytochrome |
| * | NC_000913 | 2,096,090 | 0 | A | G | 42.5% | 52.6 / 11.7 | 40 | I83V (ATT→GTT) | hisF | imidazole glycerol phosphate synthase, catalytic subunit with HisH |
| * | NC_000913 | 1,163,371 | 0 | C | T | 42.4% | 38.3 / 11.0 | 33 | L38F (CTC→TTC) | thiK | thiamine kinase |
| * | NC_000913 | 5,159 | 0 | G | A | 42.1% | 32.3 / 20.0 | 38 | intergenic (+139/‑75) | thrC/yaaX | L‑threonine synthase/DUF2502 family putative periplasmic protein |
| * | NC_000913 | 1,435,727 | 0 | G | A | 41.9% | 62.6 / 18.9 | 43 | intergenic (‑108/+33) | uspF/ompN | stress‑induced protein, ATP‑binding protein/outer membrane pore protein N, non‑specific |
| * | NC_000913 | 541,284 | 0 | A | G | 41.5% | 59.1 / 14.1 | 42 | G240G (GGA→GGG) | ybbY | putative uracil/xanthine transporter |
| * | NC_000913 | 366,515 | 0 | G | T | 40.9% | 49.4 / 14.8 | 45 | P332P (CCC→CCA) | lacI | lactose‑inducible lac operon transcriptional repressor |
| * | NC_000913 | 2,349,145 | 0 | A | C | 40.5% | 71.7 / 11.2 | 42 | F110V (TTC→GTC) | inaA | acid‑inducible Kdo/WaaP family putative kinase |
| * | NC_000913 | 5,162 | 0 | T | A | 40.0% | 42.1 / 17.5 | 42 | intergenic (+142/‑72) | thrC/yaaX | L‑threonine synthase/DUF2502 family putative periplasmic protein |
| * | NC_000913 | 1,157,282 | 0 | A | G | 40.0% | 26.7 / 10.4 | 31 | D169G (GAT→GGT) | ycfH | putative DNase |
| * | NC_000913 | 3,492,028 | 0 | C | T | 39.5% | 54.9 / 15.3 | 38 | Q90Q (CAG→CAA) | ppiA | peptidyl‑prolyl cis‑trans isomerase A (rotamase A) |
| 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 | 51 (1.030) | 14 (0.320) | 13/266 | 3.9 | 26.8% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 31 (0.700) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 48 (0.970) | 12 (0.270) | 12/266 | 4.2 | 24.3% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 32 (0.730) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||