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 230 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,634,724 | 0 | G | A | 66.7% | 5.9 / 33.4 | 39 | F54F (TTC→TTT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,658 | 0 | A | G | 63.6% | 0.7 / 53.7 | 56 | V76V (GTT→GTC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 578,831 | 0 | T | C | 63.2% | 47.3 / 59.4 | 57 | T21T (ACA→ACG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 1,634,699 | 0 | A | C | 62.5% | ‑1.7 / 53.8 | 48 | S63A (TCA→GCA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,676 | 0 | A | G | 62.3% | ‑0.7 / 52.3 | 55 | D70D (GAT→GAC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,661 | 0 | C | G | 61.8% | ‑3.8 / 75.0 | 56 | T75T (ACG→ACC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,769 | 0 | T | A | 60.9% | ‑4.9 / 25.3 | 24 | P39P (CCA→CCT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,569 | 0 | A | T | 60.0% | 2.1 / 65.9 | 50 | F106Y (TTT→TAT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 578,811 | 0 | T | G | 59.6% | 26.0 / 66.3 | 52 | Q28P (CAG→CCG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 1,634,578 | 0 | T | C | 59.6% | 2.1 / 60.5 | 53 | E103G (GAA→GGA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 578,809 | 0 | T | C | 58.5% | 17.0 / 65.6 | 54 | T29A (ACA→GCA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 1,634,597 | 0 | C | A | 58.2% | 9.8 / 80.7 | 55 | V97F (GTT→TTT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,571 | 0 | C | T | 57.7% | 6.8 / 63.7 | 52 | E105E (GAG→GAA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 579,540 | 0 | T | C | 57.5% | 25.4 / 56.4 | 48 | N19D (AAC→GAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 566,651 | 0 | T | C | 54.7% | 19.1 / 86.5 | 65 | intergenic (‑673/‑33) | intD/renD | putative integrase/protein RenD |
| * | NC_000913 | 579,502 | 0 | A | G | 53.3% | 5.7 / 60.6 | 45 | N31N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,634,778 | 0 | T | G | 52.6% | ‑2.3 / 20.6 | 19 | T36T (ACA→ACC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 566,597 | 0 | T | C | 52.5% | 10.3 / 86.2 | 61 | intergenic (‑619/‑87) | intD/renD | putative integrase/protein RenD |
| * | NC_000913 | 1,636,503 | 0 | T | C | 51.1% | 9.4 / 63.0 | 45 | intergenic (‑136/‑253) | nohA/ynfO | putative prophage DNA‑packaging protein NohA/DUF3950 domain‑containing protein YnfO |
| * | NC_000913 | 578,729 | 0 | A | G | 50.9% | ‑0.9 / 82.4 | 55 | A55A (GCT→GCC) | 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 = | 22 (0.570) | 3 (0.080) | 3/456 | 3.8 | 12.7% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 20 (0.540) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 2747600 | 42 (1.080) | 3 (0.080) | 3/474 | 3.9 | 6.6% | coding (196/1362 nt) | ffh | signal recognition particle protein component |
| ? | NC_000913 | 3365348 = | 43 (1.110) | pseudogene (164/371 nt) | yhcE | putative uncharacterized protein YhcE | |||||