mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 264 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 579,285 | 0 | T | C | 65.0% | 88.4 / 66.4 | 80 | I104V (ATT→GTT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,271 | 0 | G | A | 63.0% | 53.0 / 87.1 | 81 | H108H (CAC→CAT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,671 | 0 | T | C | 62.5% | 78.7 / 80.7 | 81 | intergenic (‑77/‑209) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,134 | 0 | T | C | 60.2% | 86.6 / 108.4 | 104 | intergenic (‑241/+50) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,717 | 0 | A | C | 60.0% | 69.1 / 87.2 | 75 | intergenic (‑123/‑163) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 578,571 | 0 | C | T | 59.8% | 51.7 / 120.1 | 104 | intergenic (+3/+29) | rzpD/borD | putative prophage endopeptidase RzpD/prophage lipoprotein BorD |
| * | NC_000913 | 579,651 | 0 | C | T | 59.8% | 44.6 / 92.9 | 82 | intergenic (‑57/‑229) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,127 | 0 | T | C | 59.6% | 95.6 / 99.0 | 105 | intergenic (‑234/+57) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,146 | 0 | A | G | 59.6% | 71.4 / 107.9 | 104 | intergenic (‑253/+38) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,729 | 0 | A | G | 59.2% | 69.7 / 109.7 | 98 | A55A (GCT→GCC) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 1,429,111 | 0 | A | C | 59.0% | 98.1 / 161.3 | 134 | T21T (ACA→ACC) | stfR | putative prophage side tail fiber protein StfR |
| * | NC_000913 | 578,574 | 0 | A | C | 58.8% | 67.8 / 115.6 | 103 | intergenic (+6/+26) | rzpD/borD | putative prophage endopeptidase RzpD/prophage lipoprotein BorD |
| * | NC_000913 | 578,605 | 0 | T | G | 58.8% | 77.1 / 111.4 | 97 | K97Q (AAA→CAA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 1,429,069 | 0 | T | A | 58.7% | 75.5 / 119.0 | 106 | G7G (GGT→GGA) | stfR | putative prophage side tail fiber protein StfR |
| * | NC_000913 | 578,809 | 0 | T | C | 57.7% | 50.3 / 111.2 | 97 | T29A (ACA→GCA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 1,429,126 | 0 | A | C | 57.4% | 69.8 / 191.0 | 148 | A26A (GCA→GCC) | stfR | putative prophage side tail fiber protein StfR |
| * | NC_000913 | 578,831 | 0 | T | C | 57.1% | 50.2 / 116.5 | 98 | T21T (ACA→ACG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 579,502 | 0 | A | G | 57.1% | 42.3 / 108.5 | 91 | N31N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,429,128 | 0 | A | G | 56.1% | 51.3 / 177.6 | 148 | K27R (AAA→AGA) | stfR | putative prophage side tail fiber protein StfR |
| * | NC_000913 | 578,811 | 0 | T | G | 55.8% | 22.8 / 128.6 | 96 | Q28P (CAG→CCG) | borD | prophage lipoprotein BorD |
| 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 | 4542682 = | 40 (0.630) | 4 (0.070) | 4/466 | 4.6 | 8.9% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 43 (0.700) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 1438363 = | 53 (0.830) | 3 (0.050) | 3/466 | 5.0 | 5.1% | coding (2422/3525 nt) | ydbK | putative pyruvate‑flavodoxin oxidoreductase |
| ? | NC_000913 | 1438856 = | 61 (1.000) | coding (1929/3525 nt) | ydbK | putative pyruvate‑flavodoxin oxidoreductase | |||||