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 260 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 339,986 | 0 | G | A | 71.0% | 30.0 / 29.1 | 38 | R73Q (CGA→CAA) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 339,979 | 0 | G | A | 64.9% | 17.4 / 30.8 | 38 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 4,132,797 | 0 | G | A | 57.1% | 39.7 / 178.7 | 133 | G61D (GGC→GAC) | metF | 5,10‑methylenetetrahydrofolate reductase |
| * | NC_000913 | 579,457 | 0 | A | G | 56.1% | 165.2 / inf | 342 | I46I (ATT→ATC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 4,119,430 | 0 | G | A | 55.9% | 36.9 / 213.0 | 152 | A307V (GCA→GTA) | menA | 1,4‑dihydroxy‑2‑naphthoate octaprenyltransferase |
| * | NC_000913 | 4,132,745 | 0 | T | C | 55.8% | 78.0 / 187.6 | 147 | S44P (TCC→CCC) | metF | 5,10‑methylenetetrahydrofolate reductase |
| * | NC_000913 | 579,502 | 0 | A | G | 55.2% | 157.2 / inf | 349 | N31N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,540 | 0 | T | C | 54.9% | 169.0 / inf | 339 | N19D (AAC→GAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 4,126,158 | 0 | G | A | 54.5% | 26.6 / 197.8 | 144 | S218F (TCT→TTT) | priA | primosomal protein N' |
| * | NC_000913 | 579,146 | 0 | A | G | 54.3% | 117.6 / inf | 267 | intergenic (‑253/+38) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,285 | 0 | T | C | 54.2% | 118.1 / inf | 295 | I104V (ATT→GTT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,651 | 0 | C | T | 54.0% | 41.2 / inf | 341 | intergenic (‑57/‑229) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,271 | 0 | G | A | 53.9% | 38.5 / inf | 291 | H108H (CAC→CAT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,385 | 0 | A | G | 53.9% | 136.7 / inf | 345 | N70N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,134 | 0 | T | C | 53.9% | 100.6 / inf | 245 | intergenic (‑241/+50) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,671 | 0 | T | C | 53.7% | 100.0 / inf | 326 | intergenic (‑77/‑209) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,127 | 0 | T | C | 53.6% | 91.0 / inf | 248 | intergenic (‑234/+57) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 580,115 | 0 | C | T | 52.9% | 32.9 / inf | 256 | intergenic (+29/+136) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 580,119 | 0 | A | G | 52.5% | 64.0 / inf | 256 | intergenic (+33/+132) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 580,020 | 0 | G | A | 52.0% | 3.2 / inf | 271 | 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 | = 566774 | 102 (0.950) | 48 (0.450) | 21/594 | 4.1 | 28.7% | pseudogene (91/93 nt) | renD | protein RenD |
| ? | NC_000913 | 568036 = | 137 (1.290) | pseudogene (2/213 nt) | renD | protein RenD | |||||
| * | ? | NC_000913 | = 3648146 | 130 (1.220) | 11 (0.130) | 11/482 | 5.5 | 9.6% | intergenic (+2/‑148) | agrA/agrB | small RNA AgrA/small regulatory RNA AgrB |
| ? | NC_000913 | 3648378 = | 102 (1.180) | intergenic (+3/‑150) | agrB/arsR | small regulatory RNA AgrB/DNA‑binding transcriptional repressor ArsR | |||||
| * | ? | NC_000913 | = 4606166 | 107 (1.000) | 9 (0.120) | 8/420 | 5.8 | 9.7% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 93 (1.240) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 696506 | 0 (0.000) | 9 (0.100) +45 bp |
8/508 | 6.9 | 21.6% | intergenic (‑2/+36) | glnX/glnV | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | 697057 = | 77 (0.720) | noncoding (77/77 nt) | metT | tRNA‑Met | |||||
| * | ? | NC_000913 | = 4295870 | 72 (0.670) | 6 (0.060) | 6/520 | 7.9 | 8.6% | intergenic (+76/+566) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| ? | NC_000913 | 4296434 = | 65 (0.700) | intergenic (+640/+2) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO | |||||
| * | ? | NC_000913 | = 2357730 | 122 (1.140) | 6 (0.060) | 5/518 | 8.4 | 5.2% | coding (827/900 nt) | rpnE | inactive recombination‑promoting nuclease‑like protein RpnE |
| ? | NC_000913 | 2357926 = | 113 (1.220) | intergenic (+123/+116) | rpnE/yfaU | inactive recombination‑promoting nuclease‑like protein RpnE/2‑keto‑3‑deoxy‑L‑rhamnonate aldolase | |||||
| * | ? | NC_000913 | = 696455 | 15 (0.140) | 4 (0.040) +A |
4/596 | 9.9 | 27.7% | noncoding (50/75 nt) | glnX | tRNA‑Gln |
| ? | NC_000913 | 696569 = | 6 (0.060) | noncoding (48/75 nt) | glnV | tRNA‑Gln | |||||