mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 108 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,699,922 | 0 | C | . | 79.1% | 221.3 / 80.1 | 92 | intergenic (+29/+58) | bcsG/ldrD | cellulose phosphoethanolamine transferase/small toxic polypeptide LdrD |
| * | NC_000913 | 3,877,756 | 0 | G | A | 78.2% | 132.8 / 31.7 | 80 | R788R (CGC→CGT) | gyrB | DNA gyrase subunit B |
| * | NC_000913 | 4,472,508 | 0 | A | G | 78.0% | 69.8 / 12.2 | 41 | V9A (GTC→GCC) | pyrL | pyrBI operon leader peptide |
| * | NC_000913 | 1,013,058 | 0 | G | T | 77.8% | 73.1 / 19.3 | 45 | R353L (CGC→CTC) | pqiA | intermembrane transport protein PqiA |
| * | NC_000913 | 2,158,814 | 0 | G | A | 77.5% | 125.1 / 26.2 | 76 | T143T (ACG→ACA) | mdtC | multidrug efflux pump RND permease subunit MdtC |
| * | NC_000913 | 971,128 | 0 | G | T | 75.3% | 111.7 / 36.3 | 73 | V93L (GTG→TTG) | kdsB | 3‑deoxy‑manno‑octulosonate cytidylyltransferase |
| * | NC_000913 | 4,234,213 | 0 | C | T | 74.4% | 60.4 / 16.7 | 39 | N152N (AAC→AAT) | pgi | glucose‑6‑phosphate isomerase |
| * | NC_000913 | 4,060,280 | 0 | T | . | 74.1% | 108.8 / 70.0 | 58 | intergenic (+50/‑167) | bipA/yihL | 50S ribosomal subunit assembly factor BipA/putative DNA‑binding transcriptional regulator YihL |
| * | NC_000913 | 21,520 | 0 | C | A | 73.1% | 117.5 / 37.9 | 78 | G38G (GGC→GGA) | ribF | bifunctional riboflavin kinase/FMN adenylyltransferase |
| * | NC_000913 | 1,514,897 | 0 | G | A | 72.5% | 63.9 / 28.7 | 52 | G46S (GGC→AGC) | ydcV | putative ABC transporter membrane subunit YdcV |
| * | NC_000913 | 595,165 | 0 | C | T | 70.9% | 62.1 / 36.3 | 55 | L93L (TTG→TTA) | cusR | DNA‑binding transcriptional activator CusR |
| * | NC_000913 | 1,058,369 | 0 | G | A | 70.6% | 61.3 / 32.2 | 56 | A96T (GCG→ACG) | torC | cytochrome c menaquinol dehydrogenase TorC |
| * | NC_000913 | 2,613,053 | 0 | C | T | 70.3% | 44.9 / 17.4 | 38 | A385V (GCC→GTC) | hyfR | DNA‑binding transcriptional activator HyfR |
| * | NC_000913 | 485,803 | 0 | C | T | 69.8% | 42.9 / 29.5 | 44 | H15Y (CAC→TAC) | acrR | DNA‑binding transcriptional repressor AcrR |
| * | NC_000913 | 1,569,942 | 0 | G | . | 69.0% | 39.0 / 34.0 | 29 | coding (548/1536 nt) | gadC | L‑glutamate:4‑aminobutyrate antiporter |
| * | NC_000913 | 2,605,391 | 0 | C | T | 69.0% | 56.6 / 35.0 | 60 | A194V (GCG→GTG) | hyfD | hydrogenase 4 component D |
| * | NC_000913 | 3,628,607 | 0 | T | C | 69.0% | 102.2 / 56.1 | 88 | N311S (AAC→AGC) | rbbA | ribosome‑associated ATPase |
| * | NC_000913 | 2,967,638 | 0 | G | T | 68.8% | 86.8 / 61.5 | 81 | S266* (TCG→TAG) | ptsP | phosphoenolpyruvate‑protein phosphotransferase PtsP |
| * | NC_000913 | 4,218,484 | 0 | G | A | 68.4% | 119.7 / 86.6 | 115 | intergenic (+71/‑112) | aceA/aceK | isocitrate lyase/isocitrate dehydrogenase kinase/phosphatase |
| * | NC_000913 | 1,601,832 | 0 | C | A | 68.0% | 45.0 / 23.2 | 26 | coding (343/1536 nt) | lsrA | Autoinducer‑2 ABC transporter ATP binding subunit |
| 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 | 4385282 = | 74 (1.190) | 4 (0.060) | 4/490 | 3.5 | 5.1% | coding (1444/1503 nt) | yjeM | putative transporter YjeM |
| ? | NC_000913 | = 4499511 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 4269616 | 42 (0.670) | 4 (0.060) | 4/490 | 3.5 | 8.6% | coding (203/714 nt) | aphA | acid phosphatase/phosphotransferase |
| ? | NC_000913 | 4269628 = | 43 (0.690) | coding (215/714 nt) | aphA | acid phosphatase/phosphotransferase | |||||
| * | ? | NC_000913 | 2996361 = | NA (NA) | 4 (0.060) | 4/490 | 3.5 | 4.4% | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 3485924 | 87 (1.390) | intergenic (‑106/‑196) | yhfA/crp | OsmC family protein YhfA/DNA‑binding transcriptional dual regulator CRP | |||||
| * | ? | NC_000913 | = 1469240 | NA (NA) | 3 (0.050) | 3/488 | 3.8 | 10.0% | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 1588242 | 27 (0.430) | coding (55/504 nt) | ydeR | putative fimbrial protein YdeR | |||||