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 236 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 579,540 | 0 | T | C | 56.0% | 119.3 / inf | 352 | N19D (AAC→GAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,457 | 0 | A | G | 56.0% | 106.5 / inf | 311 | I46I (ATT→ATC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,811 | 0 | C | T | 55.6% | 112.9 / inf | 248 | intergenic (‑217/‑69) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 580,020 | 0 | G | A | 55.6% | 105.5 / 283.6 | 207 | R47R (AGG→AGA) | ybcW | uncharacterized protein YbcW |
| * | NC_000913 | 579,385 | 0 | A | G | 55.4% | 107.6 / inf | 336 | N70N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,502 | 0 | A | G | 55.1% | 90.3 / inf | 353 | N31N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,651 | 0 | C | T | 54.9% | 136.9 / inf | 326 | intergenic (‑57/‑229) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 580,115 | 0 | C | T | 54.7% | 93.0 / 240.2 | 181 | intergenic (+29/+136) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 580,120 | 0 | C | T | 54.7% | 86.2 / 248.0 | 185 | intergenic (+34/+131) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 579,671 | 0 | T | C | 54.4% | 54.6 / inf | 305 | intergenic (‑77/‑209) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 579,717 | 0 | A | C | 54.0% | 147.9 / inf | 322 | intergenic (‑123/‑163) | ybcV/ybcW | DUF1398 domain‑containing protein YbcV/uncharacterized protein YbcW |
| * | NC_000913 | 580,119 | 0 | A | G | 53.8% | 30.2 / 278.9 | 184 | intergenic (+33/+132) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 579,146 | 0 | A | G | 52.8% | 22.8 / inf | 230 | intergenic (‑253/+38) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,271 | 0 | G | A | 52.7% | 56.1 / inf | 281 | H108H (CAC→CAT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 2,774,809 | 0 | A | . | 52.6% | 261.9 / inf | 156 | coding (1492/1704 nt) | yfjW | uncharacterized protein YfjW |
| * | NC_000913 | 988,198 | 0 | G | A | 52.4% | 17.1 / 117.5 | 82 | A263V (GCG→GTG) | asnS | asparagine‑‑tRNA ligase |
| * | NC_000913 | 579,285 | 0 | T | C | 52.4% | ‑1.3 / inf | 295 | I104V (ATT→GTT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 1,634,724 | 0 | G | A | 52.0% | 43.0 / 222.9 | 148 | F54F (TTC→TTT) | tfaQ | putative tail fiber assembly protein TfaQ |
| * | NC_000913 | 579,127 | 0 | T | C | 52.0% | 17.7 / inf | 227 | intergenic (‑234/+57) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,134 | 0 | T | C | 51.6% | 1.5 / inf | 221 | intergenic (‑241/+50) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| 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 | 97 (1.100) | 11 (0.180) | 11/420 | 3.9 | 13.9% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 68 (1.090) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 566774 | 98 (1.110) | 49 (0.560) | 14/594 | 4.8 | 35.3% | pseudogene (91/93 nt) | renD | protein RenD |
| ? | NC_000913 | 568036 = | 82 (0.930) | pseudogene (2/213 nt) | renD | protein RenD | |||||
| * | ? | NC_000913 | = 2357730 | 81 (0.910) | 9 (0.120) | 9/518 | 5.6 | 9.7% | coding (827/900 nt) | rpnE | inactive recombination‑promoting nuclease‑like protein RpnE |
| ? | NC_000913 | 2357926 = | 97 (1.260) | intergenic (+123/+116) | rpnE/yfaU | inactive recombination‑promoting nuclease‑like protein RpnE/2‑keto‑3‑deoxy‑L‑rhamnonate aldolase | |||||
| * | ? | NC_000913 | = 2653419 | 57 (0.640) | 5 (0.060) | 5/548 | 7.7 | 7.3% | noncoding (37/100 nt) | timR | putative small regulatory RNA TimR |
| ? | NC_000913 | 2653746 = | 74 (0.910) | intergenic (‑291/‑109) | timR/ryfA | putative small regulatory RNA TimR/small regulatory RNA RyfA | |||||
| * | ? | NC_000913 | 1411899 = | 114 (1.290) | 5 (0.060) | 5/546 | 7.7 | 4.0% | coding (50/936 nt) | ttcA | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| ? | NC_000913 | = 1434958 | 134 (1.660) | intergenic (‑552/+227) | ynaM/uspF | protein YnaM/universal stress protein F | |||||
| * | ? | NC_000913 | = 1287084 | 51 (0.580) | 4 (0.050) | 4/558 | 8.4 | 7.8% | noncoding (153/171 nt) | rttR | small RNA RttR |
| ? | NC_000913 | 1287557 = | 47 (0.570) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 1286906 | 54 (0.610) | 7 (0.080) | 4/558 | 8.4 | 12.6% | coding (198/276 nt) | ychS | putative uncharacterized protein YchS |
| ? | NC_000913 | 1287557 = | 47 (0.570) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | 3270072 = | 51 (0.580) | 4 (0.050) +25 bp |
3/548 | 8.9 | 5.8% | intergenic (+470/+144) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| ? | NC_000913 | 4137788 = | 92 (1.040) | intergenic (‑131/+144) | yijF/gldA | DUF1287 domain‑containing protein YijF/L‑1,2‑propanediol dehydrogenase/glycerol dehydrogenase | |||||
| * | ? | NC_000913 | 3270072 = | 51 (0.580) | 4 (0.050) +CAGATTGTTG |
3/578 | 9.2 | 5.9% | intergenic (+470/+144) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| ? | NC_000913 | 3639193 = | 80 (0.900) | intergenic (+52/+192) | pitA/uspB | metal phosphate:H(+) symporter PitA/universal stress protein B | |||||