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 164 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,773,040 | 0 | G | . | 71.4% | 19.5 / 11.3 | 14 | coding (760/1914 nt) | mtlA | mannitol‑specific PTS enzyme IICBA component |
| * | NC_000913 | 3,773,041 | 0 | G | . | 71.4% | 17.8 / 13.0 | 14 | coding (761/1914 nt) | mtlA | mannitol‑specific PTS enzyme IICBA component |
| * | NC_000913 | 579,146 | 0 | A | G | 70.6% | 43.7 / 15.9 | 35 | intergenic (‑253/+38) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,004 | 0 | C | T | 68.3% | 32.6 / 32.1 | 41 | intergenic (‑111/+180) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,134 | 0 | T | C | 66.7% | 33.4 / 22.2 | 33 | intergenic (‑241/+50) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,634,676 | 0 | A | G | 66.7% | 7.8 / 21.0 | 34 | D70D (GAT→GAC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,658 | 0 | A | G | 65.7% | 9.1 / 20.2 | 36 | V76V (GTT→GTC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,661 | 0 | C | G | 65.7% | 8.1 / 35.1 | 35 | T75T (ACG→ACC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 579,099 | 0 | A | . | 65.6% | 16.8 / 50.4 | 33 | intergenic (‑206/+85) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,634,699 | 0 | A | C | 65.5% | 5.1 / 13.9 | 29 | S63A (TCA→GCA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 579,127 | 0 | T | C | 64.7% | 31.8 / 25.4 | 34 | intergenic (‑234/+57) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,811 | 0 | T | G | 61.8% | 9.6 / 27.7 | 34 | Q28P (CAG→CCG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 1,634,724 | 0 | G | A | 61.5% | 1.3 / 24.6 | 26 | F54F (TTC→TTT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 578,831 | 0 | T | C | 61.1% | 24.4 / 30.9 | 36 | T21T (ACA→ACG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 578,809 | 0 | T | C | 58.8% | 17.5 / 29.2 | 34 | T29A (ACA→GCA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 4,208,132 | 0 | G | A | 56.0% | 0.7 / 27.9 | 25 | intergenic (‑600/‑15) | purH/rrsE | bifunctional AICAR transformylase/IMP cyclohydrolase/16S ribosomal RNA |
| * | NC_000913 | 579,271 | 0 | G | A | 55.3% | 1.0 / 53.5 | 47 | H108H (CAC→CAT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,605 | 0 | T | G | 54.8% | 8.2 / 26.4 | 31 | K97Q (AAA→CAA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 579,285 | 0 | T | C | 54.4% | 11.1 / 50.1 | 47 | I104V (ATT→GTT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,429,072 | 0 | A | C | 53.8% | ‑0.6 / 21.5 | 26 | V8V (GTA→GTC) | stfR | putative prophage side tail fiber protein StfR |
| 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 = | 11 (0.630) | 3 (0.180) | 3/274 | 1.6 | 18.6% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 16 (0.970) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||