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 263 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 | 71.8% | 54.8 / 23.0 | 39 | R73Q (CGA→CAA) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 339,979 | 0 | G | A | 69.2% | 44.6 / 28.1 | 39 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 580,020 | 0 | G | A | 55.8% | 122.9 / 308.7 | 226 | R47R (AGG→AGA) | ybcW | uncharacterized protein YbcW |
| * | NC_000913 | 1,634,724 | 0 | G | A | 54.1% | 24.7 / 186.0 | 133 | F54F (TTC→TTT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 579,099 | 0 | A | . | 53.6% | 7.2 / inf | 276 | intergenic (‑206/+85) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,127 | 0 | T | C | 53.6% | 58.0 / inf | 252 | intergenic (‑234/+57) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,134 | 0 | T | C | 53.6% | 53.3 / inf | 252 | intergenic (‑241/+50) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,729 | 0 | A | G | 53.3% | 24.6 / inf | 242 | A55A (GCT→GCC) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 1,634,661 | 0 | C | G | 52.2% | 54.8 / 270.5 | 159 | T75T (ACG→ACC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,676 | 0 | A | G | 52.0% | 49.0 / 242.5 | 150 | D70D (GAT→GAC) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 566,651 | 0 | T | C | 51.7% | 20.0 / 266.7 | 172 | intergenic (‑673/‑33) | intD/renD | putative integrase/protein RenD |
| * | NC_000913 | 1,634,569 | 0 | A | T | 51.6% | 64.8 / 313.0 | 154 | F106Y (TTT→TAT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 579,146 | 0 | A | G | 51.5% | 15.5 / inf | 259 | intergenic (‑253/+38) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,634,699 | 0 | A | C | 51.4% | 44.7 / 216.8 | 142 | S63A (TCA→GCA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,597 | 0 | C | A | 51.2% | 67.5 / 268.2 | 168 | V97F (GTT→TTT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 580,115 | 0 | C | T | 51.2% | 55.2 / 313.1 | 215 | intergenic (+29/+136) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 578,605 | 0 | T | G | 51.1% | 32.3 / inf | 223 | K97Q (AAA→CAA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 1,634,571 | 0 | C | T | 51.0% | 64.7 / 246.0 | 155 | E105E (GAG→GAA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 1,634,578 | 0 | T | C | 50.9% | 69.2 / 261.7 | 160 | E103G (GAA→GGA) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 579,651 | 0 | C | T | 50.7% | 54.7 / inf | 335 | intergenic (‑57/‑229) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/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 | = 4606166 | 112 (1.230) | 11 (0.170) | 10/420 | 4.0 | 13.7% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 60 (0.940) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 4542690 | 156 (1.720) | 17 (0.190) | 16/580 | 4.0 | 10.4% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 141 (1.600) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 148 (1.630) | 14 (0.160) | 13/580 | 4.7 | 9.0% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 141 (1.600) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1287463 | 0 (0.000) | 17 (0.190) | 13/586 | 4.7 | 100% | intergenic (‑135/+75) | tyrV/tyrT | tRNA‑Tyr/tRNA‑Tyr |
| ? | NC_000913 | 1287574 = | 0 (0.000) | noncoding (49/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 781222 | 52 (0.570) | 7 (0.100) | 6/446 | 5.7 | 15.1% | noncoding (76/76 nt) | lysY | tRNA‑Lys |
| ? | NC_000913 | 781445 = | 40 (0.590) | intergenic (+1/‑132) | lysZ/lysQ | tRNA‑Lys/tRNA‑Lys | |||||
| * | ? | NC_000913 | = 696741 | 59 (0.650) | 4 (0.060) | 4/442 | 6.7 | 7.8% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 51 (0.760) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 3469004 | 92 (1.010) | 9 (0.100) | 6/586 | 7.1 | 8.7% | coding (850/2694 nt) | chiA | endochitinase |
| ? | NC_000913 | 3469308 = | 99 (1.110) | coding (546/2694 nt) | chiA | endochitinase | |||||
| * | ? | NC_000913 | 1411899 = | 116 (1.280) | 4 (0.050) | 4/546 | 7.7 | 3.4% | coding (50/936 nt) | ttcA | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| ? | NC_000913 | = 1434958 | 119 (1.440) | intergenic (‑552/+227) | ynaM/uspF | protein YnaM/universal stress protein F | |||||
| * | ? | NC_000913 | 3270072 = | 45 (0.500) | 3 (0.040) +25 bp |
3/548 | 8.3 | 4.6% | intergenic (+470/+144) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| ? | NC_000913 | 4137788 = | 91 (1.000) | intergenic (‑131/+144) | yijF/gldA | DUF1287 domain‑containing protein YijF/L‑1,2‑propanediol dehydrogenase/glycerol dehydrogenase | |||||