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 596 shown) | |||||||||||
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| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,177,748 | 0 | C | A | 48.3% | 72.1 / 68.2 | 89 | E55* (GAG→TAG) | nudF | ADP‑ribose pyrophosphatase |
| * | NC_000913 | 3,133,302 | 0 | T | G | 46.2% | 134.2 / 18.6 | 80 | H219P (CAC→CCC) | yghS | putative ATP‑binding protein |
| * | NC_000913 | 357,890 | 0 | C | A | 45.9% | 56.6 / 39.2 | 63 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 436,516 | 0 | C | A | 45.8% | 77.4 / 36.4 | 59 | Q295K (CAA→AAA) | thiL | thiamine monophosphate kinase |
| * | NC_000913 | 29,496 | 0 | T | A | 45.2% | 80.9 / 49.4 | 73 | intergenic (+301/‑155) | dapB/carA | dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase |
| * | NC_000913 | 2,001,918 | 0 | A | C | 44.3% | 97.3 / 19.7 | 61 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein (flagellin) |
| * | NC_000913 | 599,576 | 0 | T | G | 43.8% | 101.6 / 22.3 | 65 | V288G (GTG→GGG) | cusA | copper/silver efflux system, membrane component |
| * | NC_000913 | 2,434,882 | 0 | T | G | 43.3% | 106.5 / 24.3 | 67 | Y252S (TAC→TCC) | truA | tRNA pseudouridine(38‑40) synthase |
| * | NC_000913 | 3,423,287 | 0 | G | C | 42.9% | 109.0 / 38.2 | 78 | intergenic (+93/+136) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| * | NC_000913 | 1,535,789 | 0 | C | A | 42.4% | 99.3 / 34.9 | 59 | V24F (GTT→TTT) | yddE | PhzC‑PhzF family protein |
| * | NC_000913 | 1,825,056 | 0 | G | A | 42.2% | 67.0 / 21.1 | 45 | intergenic (‑119/+84) | ves/spy | cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced |
| * | NC_000913 | 1,776,263 | 0 | T | G | 42.1% | 93.8 / 17.9 | 58 | V226G (GTG→GGG) | ydiF | putative acetyl‑CoA:acetoacetyl‑CoA transferase: alpha subunit/beta subunit |
| * | NC_000913 | 1,376,505 | 0 | A | C | 41.9% | 115.0 / 14.6 | 62 | T158P (ACC→CCC) | ycjR | putative TIM alpha/beta barrel enzyme |
| * | NC_000913 | 2,547,772 | 0 | T | G | 41.9% | 128.4 / 12.7 | 75 | V367G (GTA→GGA) | murP | N‑acetylmuramic acid permease, EIIBC component, PTS system |
| * | NC_000913 | 436,504 | 0 | A | C | 41.4% | 97.6 / 17.2 | 60 | T291P (ACC→CCC) | thiL | thiamine monophosphate kinase |
| * | NC_000913 | 1,535,785 | 0 | A | G | 41.4% | 83.5 / 15.9 | 58 | F25S (TTC→TCC) | yddE | PhzC‑PhzF family protein |
| * | NC_000913 | 941,713 | 0 | T | G | 41.3% | 75.6 / 11.8 | 46 | V252G (GTG→GGG) | dmsA | dimethyl sulfoxide reductase, anaerobic, subunit A |
| * | NC_000913 | 1,736,784 | 0 | T | C | 41.3% | 70.1 / 10.6 | 46 | G169G (GGA→GGG) | ydhP | putative MFS transporter, inner membrane protein |
| * | NC_000913 | 1,825,061 | 0 | G | A | 41.3% | 67.2 / 25.1 | 46 | intergenic (‑124/+79) | ves/spy | cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced |
| * | NC_000913 | 15,410 | 0 | T | G | 41.2% | 118.2 / 11.5 | 69 | intergenic (+112/‑35) | dnaJ/insL1 | chaperone Hsp40, DnaK co‑chaperone/IS186 transposase |
| 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 | = 1755699 | 39 (0.510) | 17 (0.220) | 17/298 | 4.0 | 31.2% | coding (2/1413 nt) | pykF | pyruvate kinase I |
| ? | NC_000913 | 1765394 = | 36 (0.470) | coding (239/411 nt) | menI | 1,4‑dihydroxy‑2‑naphthoyl‑CoA hydrolase | |||||