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 428 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,859,432 | 0 | C | T | 79.7% | 179.7 / ‑3.2 | 64 | G780G (GGC→GGT) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 357,890 | 0 | C | A | 58.3% | ‑1.1 / 35.4 | 36 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 357,880 | 0 | T | C | 55.3% | 22.0 / 47.7 | 38 | K271E (AAA→GAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 1,097,581 | 0 | A | G | 52.5% | 69.6 / 88.0 | 60 | noncoding (72/88 nt) | serX | tRNA‑Ser |
| * | NC_000913 | 357,875 | 0 | A | T | 52.5% | 17.1 / 53.8 | 40 | N272K (AAT→AAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 3,206,435 | 0 | C | T | 52.5% | 31.9 / 85.6 | 61 | intergenic (‑179/‑28) | ttdR/ttdA | transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit |
| * | NC_000913 | 436,516 | 0 | C | A | 50.0% | 46.8 / 34.4 | 54 | Q295K (CAA→AAA) | thiL | thiamine monophosphate kinase |
| * | NC_000913 | 2,903,692 | 0 | C | A | 47.1% | 94.0 / 54.9 | 70 | intergenic (+318/+1055) | ygcE/queE | putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis |
| * | NC_000913 | 2,252,646 | 0 | T | G | 46.4% | 77.8 / 12.4 | 56 | V316G (GTA→GGA) | yeiI | putative kinase |
| * | NC_000913 | 599,576 | 0 | T | G | 46.0% | 106.2 / 30.1 | 74 | V288G (GTG→GGG) | cusA | copper/silver efflux system, membrane component |
| * | NC_000913 | 3,812,792 | 0 | C | A | 45.7% | 96.8 / 51.3 | 81 | T21N (ACC→AAC) | dfp | fused 4'‑phosphopantothenoylcysteine decarboxylase/phosphopantothenoylcysteine synthetase, FMN‑binding |
| * | NC_000913 | 1,535,785 | 0 | A | G | 45.1% | 97.4 / 22.1 | 71 | F25S (TTC→TCC) | yddE | PhzC‑PhzF family protein |
| * | NC_000913 | 1,157,271 | 0 | T | G | 44.4% | 88.8 / 11.0 | 54 | G165G (GGT→GGG) | ycfH | putative DNase |
| * | NC_000913 | 2,001,918 | 0 | A | C | 44.4% | 107.4 / 14.7 | 63 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein (flagellin) |
| * | NC_000913 | 29,496 | 0 | T | A | 43.8% | 92.4 / 30.6 | 64 | intergenic (+301/‑155) | dapB/carA | dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase |
| * | NC_000913 | 1,097,593 | 0 | G | C | 43.5% | 105.3 / 30.4 | 64 | noncoding (60/88 nt) | serX | tRNA‑Ser |
| * | NC_000913 | 2,252,657 | 0 | C | T | 43.3% | 76.4 / 30.3 | 60 | L320F (CTT→TTT) | yeiI | putative kinase |
| * | NC_000913 | 3,206,444 | 0 | T | A | 43.1% | 63.3 / 23.5 | 58 | intergenic (‑188/‑19) | ttdR/ttdA | transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit |
| * | NC_000913 | 4,538,109 | 0 | A | C | 43.1% | 115.9 / 24.6 | 72 | G219G (GGT→GGG) | nanM | N‑acetylneuraminic acid mutarotase |
| * | NC_000913 | 3,465,167 | 0 | G | T | 42.9% | 69.0 / 28.1 | 56 | C29F (TGT→TTT) | gspM | general secretory pathway component, cryptic |
| 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 (0.750) | 12 (0.200) | 12/266 | 7.1 | 19.8% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 52 (0.850) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 48 (0.700) | 12 (0.200) | 12/266 | 7.1 | 19.9% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 54 (0.890) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||