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 152 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 706,279 | 0 | A | G | 67.7% | 385.5 / 288.1 | 285 | N63D (AAC→GAC) | glnS | glutamine‑‑tRNA ligase |
| * | NC_000913 | 711,968 | 0 | C | T | 64.8% | 297.1 / 252.5 | 236 | intergenic (‑70/+70) | ybfE/ybfF | ribbon‑helix‑helix domain‑containing protein YbfE/esterase |
| * | NC_000913 | 581,337 | 0 | G | A | 60.5% | 223.3 / 270.4 | 220 | L168L (CTG→CTA) ‡ | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,322 | 0 | C | T | 60.3% | 195.9 / 252.6 | 206 | A163A (GCC→GCT) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 1,951,320 | 0 | G | A | 59.9% | 158.5 / 238.3 | 187 | Q163Q (CAG→CAA) | yecD | isochorismatase family protein YecD |
| * | NC_000913 | 581,335 | 0 | C | A | 59.6% | 126.6 / 298.0 | 223 | L168M (CTG→ATG) ‡ | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 1,951,338 | 0 | C | T | 56.4% | 117.2 / 225.1 | 172 | N169N (AAC→AAT) | yecD | isochorismatase family protein YecD |
| * | NC_000913 | 581,291 | 0 | G | A | 56.2% | 104.9 / 230.5 | 178 | R153Q (CGG→CAG) ‡ | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,381 | 0 | A | G | 56.2% | 99.5 / inf | 226 | intergenic (+2/‑153) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,380 | 0 | C | G | 56.0% | 90.8 / inf | 226 | intergenic (+1/‑154) | nohD/tfaD | putative DNA‑packaging protein NohD/putative tail fiber assembly protein TfaD |
| * | NC_000913 | 581,275 | 0 | G | A | 55.9% | 132.4 / 239.6 | 177 | V148I (GTT→ATT) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,290 | 0 | C | A | 55.9% | 56.9 / 266.5 | 177 | R153R (CGG→AGG) ‡ | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 1,951,335 | 0 | C | T | 55.8% | 91.0 / 245.3 | 173 | I168I (ATC→ATT) | yecD | isochorismatase family protein YecD |
| * | NC_000913 | 1,951,332 | 0 | T | C | 55.8% | 61.6 / 254.1 | 174 | S167S (AGT→AGC) | yecD | isochorismatase family protein YecD |
| * | NC_000913 | 581,289 | 0 | A | G | 55.6% | 71.6 / 259.2 | 178 | K152K (AAA→AAG) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,295 | 0 | T | C | 55.6% | 86.1 / 274.1 | 180 | D154D (GAT→GAC) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,301 | 0 | C | T | 55.3% | 101.9 / 261.9 | 179 | I156I (ATC→ATT) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,286 | 0 | G | C | 55.2% | 89.4 / 265.0 | 178 | L151L (CTG→CTC) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,259 | 0 | A | G | 52.5% | 56.1 / 248.4 | 158 | E142E (GAA→GAG) | nohD | putative DNA‑packaging protein NohD |
| * | NC_000913 | 581,253 | 0 | T | C | 51.7% | ‑1.6 / 239.9 | 147 | F140F (TTT→TTC) | nohD | putative DNA‑packaging protein NohD |
| Marginal new junction evidence (lowest skew 10 of 13 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4542690 | 152 (1.460) | 15 (0.150) | 15/580 | 5.1 | 9.9% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 125 (1.240) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4606166 | 96 (0.920) | 9 (0.120) | 9/420 | 5.2 | 12.4% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 60 (0.820) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 566774 | 100 (0.960) | 54 (0.520) | 15/594 | 5.2 | 34.7% | pseudogene (91/93 nt) | renD | protein RenD |
| ? | NC_000913 | 568036 = | 104 (1.010) | pseudogene (2/213 nt) | renD | protein RenD | |||||
| * | ? | NC_000913 | 4542682 = | 143 (1.380) | 13 (0.130) | 12/580 | 6.0 | 8.9% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 126 (1.250) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 781222 | 54 (0.520) | 5 (0.060) | 5/446 | 7.3 | 9.9% | noncoding (76/76 nt) | lysY | tRNA‑Lys |
| ? | NC_000913 | 781653 = | 51 (0.660) | intergenic (+1/‑432) | lysQ/nadA | tRNA‑Lys/quinolinate synthase | |||||
| * | ? | NC_000913 | = 696504 | 76 (0.730) | 8 (0.090) | 7/540 | 7.4 | 10.1% | noncoding (1/75 nt) | glnX | tRNA‑Gln |
| ? | NC_000913 | 696940 = | 74 (0.790) | intergenic (‑1/+23) | glnU/leuW | tRNA‑Gln/tRNA‑Leu | |||||
| * | ? | NC_000913 | = 1286906 | 68 (0.650) | 6 (0.060) | 6/558 | 8.1 | 9.5% | coding (198/276 nt) | ychS | putative uncharacterized protein YchS |
| ? | NC_000913 | 1287557 = | 51 (0.530) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 3469013 | 103 (0.990) | 6 (0.060) | 6/582 | 8.3 | 5.6% | coding (841/2694 nt) | chiA | endochitinase |
| ? | NC_000913 | 3469317 = | 103 (1.020) | coding (537/2694 nt) | chiA | endochitinase | |||||
| * | ? | NC_000913 | 781760 = | 78 (0.750) | 7 (0.080) +49 bp |
4/500 | 8.5 | 11.3% | intergenic (+108/‑325) | lysQ/nadA | tRNA‑Lys/quinolinate synthase |
| ? | NC_000913 | = 2521328 | 54 (0.520) | noncoding (76/76 nt) | lysV | tRNA‑Lys | |||||
| * | ? | NC_000913 | 3270072 = | 61 (0.590) | 5 (0.050) +25 bp |
4/548 | 9.0 | 6.8% | intergenic (+470/+144) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| ? | NC_000913 | 4137788 = | 88 (0.850) | intergenic (‑131/+144) | yijF/gldA | DUF1287 domain‑containing protein YijF/L‑1,2‑propanediol dehydrogenase/glycerol dehydrogenase | |||||