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 120 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 579,717 | 0 | A | C | 75.8% | 218.1 / 65.7 | 99 | intergenic (‑123/‑163) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,671 | 0 | T | C | 75.3% | 178.4 / 59.2 | 93 | intergenic (‑77/‑209) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 1,636,484 | 0 | C | T | 75.0% | 124.3 / 55.7 | 93 | intergenic (‑117/‑272) | nohA/ynfO | putative prophage DNA‑packaging protein NohA/DUF3950 domain‑containing protein YnfO |
| * | NC_000913 | 579,651 | 0 | C | T | 74.5% | 154.1 / 63.4 | 94 | intergenic (‑57/‑229) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,540 | 0 | T | C | 73.2% | 144.8 / 55.5 | 82 | N19D (AAC→GAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,636,503 | 0 | T | C | 71.9% | 128.1 / 67.9 | 97 | intergenic (‑136/‑253) | nohA/ynfO | putative prophage DNA‑packaging protein NohA/DUF3950 domain‑containing protein YnfO |
| * | NC_000913 | 1,636,423 | 0 | T | C | 71.3% | 121.7 / 77.0 | 110 | intergenic (‑56/‑333) | nohA/ynfO | putative prophage DNA‑packaging protein NohA/DUF3950 domain‑containing protein YnfO |
| * | NC_000913 | 1,636,413 | 0 | C | A | 70.9% | 115.3 / 105.3 | 117 | intergenic (‑46/‑343) | nohA/ynfO | putative prophage DNA‑packaging protein NohA/DUF3950 domain‑containing protein YnfO |
| * | NC_000913 | 1,636,455 | 0 | G | A | 70.4% | 98.1 / 83.0 | 98 | intergenic (‑88/‑301) | nohA/ynfO | putative prophage DNA‑packaging protein NohA/DUF3950 domain‑containing protein YnfO |
| * | NC_000913 | 579,502 | 0 | A | G | 69.6% | 114.3 / 61.3 | 79 | N31N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,811 | 0 | C | T | 68.4% | 107.0 / 91.4 | 96 | intergenic (‑217/‑69) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,457 | 0 | A | G | 67.5% | 111.9 / 68.1 | 80 | I46I (ATT→ATC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,385 | 0 | A | G | 67.4% | 106.0 / 78.0 | 86 | N70N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,811 | 0 | T | G | 66.1% | 119.6 / 122.3 | 120 | Q28P (CAG→CCG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 578,831 | 0 | T | C | 65.8% | 141.6 / 115.8 | 124 | T21T (ACA→ACG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 578,809 | 0 | T | C | 65.6% | 137.2 / 115.8 | 122 | T29A (ACA→GCA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 4,040,623 | 0 | G | A | 64.9% | 48.8 / 92.0 | 94 | noncoding (107/120 nt) | rrfA | 5S ribosomal RNA |
| * | NC_000913 | 579,004 | 0 | C | T | 64.1% | 70.0 / 100.8 | 92 | intergenic (‑111/+180) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,099 | 0 | A | . | 63.9% | 65.1 / 160.0 | 86 | intergenic (‑206/+85) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 580,020 | 0 | G | A | 62.7% | 79.6 / 125.9 | 110 | R47R (AGG→AGA) | ybcW | uncharacterized protein YbcW |
| 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 | = 262924 | 14 (0.190) | 3 (0.040) +G |
3/490 | 4.1 | 20.8% | noncoding (54/76 nt) | thrW | tRNA‑Thr |
| ? | NC_000913 | 297234 = | 9 (0.120) | intergenic (‑138/+147) | intF/yagP | putative phage integrase/putative LysR family substrate binding domain‑containing protein YagP | |||||