mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 464 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,725,739 | 1 | . | C | 74.9% | 465.9 / 151.8 | 184 | coding (1262/1455 nt) | xylB | xylulokinase |
| * | NC_000913 | 3,778,475 | 0 | A | G | 74.6% | 444.2 / 212.8 | 291 | Q341R (CAG→CGG) | lldD | L‑lactate dehydrogenase |
| * | NC_000913 | 283,356 | 0 | A | G | 74.4% | 341.3 / 161.0 | 223 | N311S (AAT→AGT) | yagF | putative dehydratase |
| * | NC_000913 | 3,916,168 | 0 | A | G | 74.4% | 526.1 / 259.0 | 347 | S440P (TCC→CCC) | atpA | membrane‑bound ATP synthase, F1 sector, alpha‑subunit |
| * | NC_000913 | 718,746 | 0 | T | C | 74.2% | 425.4 / 202.3 | 275 | Y313C (TAC→TGC) | speF | ornithine decarboxylase isozyme |
| * | NC_000913 | 3,767,270 | 0 | T | C | 74.1% | 119.7 / 57.6 | 81 | V100A (GTA→GCA) | b4549 | hypothetical protein |
| * | NC_000913 | 1,846,504 | 0 | G | A | 74.0% | 438.6 / 167.8 | 278 | A66V (GCG→GTG) | ydjA | hypothetical protein |
| * | NC_000913 | 3,824,467 | 0 | T | C | 73.9% | 424.1 / 203.9 | 284 | L544P (CTA→CCA) | recG | DNA helicase |
| * | NC_000913 | 3,718,350 | 0 | C | T | 73.9% | 596.9 / 196.4 | 303 | V14V (GTC→GTT) | yi5A | IS150 hypothetical protein |
| * | NC_000913 | 4,344,625 | 0 | A | G | 73.7% | 422.1 / 197.0 | 278 | S94P (TCC→CCC) | fumB | fumarase B |
| * | NC_000913 | 30,572 | 0 | A | G | 73.6% | 448.1 / 208.3 | 299 | T308A (ACC→GCC) | carA | carbamoyl‑phosphate synthetase |
| * | NC_000913 | 1,599,633 | 0 | C | T | 73.5% | 476.6 / 161.1 | 249 | H40H (CAC→CAT) | b1513 | putative ATP‑binding component of a transport system |
| * | NC_000913 | 580,677 | 0 | C | T | 73.4% | 505.4 / 176.3 | 274 | A34V (GCG→GTG) | ybcX | hypothetical protein |
| * | NC_000913 | 385,942 | 0 | T | C | 73.3% | 457.4 / 243.3 | 315 | L171P (CTG→CCG) | tauB | TauB |
| * | NC_000913 | 703,294 | 0 | A | G | 73.0% | 330.0 / 175.3 | 233 | Q43R (CAG→CGG) | nagE | PTS system, N‑acetylglucosamine‑specific enzyme IIABC |
| * | NC_000913 | 705,013 | 0 | C | T | 72.9% | 427.8 / 147.9 | 225 | P616L (CCG→CTG) | nagE | PTS system, N‑acetylglucosamine‑specific enzyme IIABC |
| * | NC_000913 | 1,917,005 | 0 | T | C | 72.7% | 348.1 / 176.2 | 242 | M493T (ATG→ACG) | b1834 | hypothetical protein |
| * | NC_000913 | 2,912,095 | 0 | T | C | 72.6% | 367.8 / 205.2 | 263 | S310G (AGT→GGT) | ygcA | hypothetical protein |
| * | NC_000913 | 580,431 | 0 | T | A | 72.4% | 21.6 / 24.8 | 29 | I125I (ATT→ATA) | nohB | bacteriophage DNA packaging protein |
| * | NC_000913 | 3,648,536 | 0 | C | T | 72.1% | 355.3 / 134.8 | 197 | intergenic (+244/‑385) | arsC/yhiS | arsenate reductase/hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 16 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 3980297 | 276 (0.940) | 146 (0.560) +CCC |
83/162 | 3.2 | 48.1% | noncoding (79/87 nt) | leuT | tRNA‑Leu |
| ? | NC_000913 | = 4603655 | 75 (0.280) | noncoding (80/88 nt) | leuV | tRNA‑Leu | |||||
| * | ? | NC_000913 | = 4603655 | 63 (0.230) | 158 (0.550) +GGG |
80/162 | 3.7 | 51.1% | noncoding (80/88 nt) | leuV | tRNA‑Leu |
| ? | NC_000913 | 4603892 = | 243 (0.830) | noncoding (79/87 nt) | leuQ | tRNA‑Leu | |||||
| * | ? | NC_000913 | = 4603655 | 62 (0.230) | 158 (0.550) +GGG |
79/162 | 3.8 | 71.4% | noncoding (80/88 nt) | leuV | tRNA‑Leu |
| ? | NC_000913 | 4603656 = | 63 (0.210) | noncoding (79/88 nt) | leuV | tRNA‑Leu | |||||
| * | ? | NC_000913 | 4540250 = | 94 (0.320) | 90 (0.340) | 64/166 | 6.9 | 42.9% | intergenic (+49/‑433) | fimE/fimA | FimE/major type 1 subunit fimbrin |
| ? | NC_000913 | 4540564 = | 155 (0.580) | intergenic (+363/‑119) | fimE/fimA | FimE/major type 1 subunit fimbrin | |||||
| * | ? | NC_000913 | = 3313058 | 294 (1.000) | 50 (0.180) | 45/174 | 12.4 | 15.2% | coding (598/2673 nt) | infB | protein chain initiation factor IF‑2 |
| ? | NC_000913 | 3313308 = | 279 (1.000) | coding (348/2673 nt) | infB | protein chain initiation factor IF‑2 | |||||
| * | ? | NC_000913 | = 4540258 | 108 (0.370) | 42 (0.160) | 37/166 | 14.1 | 25.2% | intergenic (+57/‑425) | fimE/fimA | FimE/major type 1 subunit fimbrin |
| ? | NC_000913 | = 4540554 | 152 (0.570) | intergenic (+353/‑129) | fimE/fimA | FimE/major type 1 subunit fimbrin | |||||
| * | ? | NC_000913 | = 4008398 | 144 (0.500) | 156 (0.550) +AAGA |
31/172 | 16.8 | 52.8% | coding (481/516 nt) | b4555 | hypothetical protein |
| ? | NC_000913 | 4008399 = | 144 (0.490) | coding (482/516 nt) | b4555 | hypothetical protein | |||||
| * | ? | NC_000913 | = 4603655 | 154 (0.570) | 64 (0.220) +GGG |
23/162 | 19.2 | 22.7% | noncoding (80/88 nt) | leuV | tRNA‑Leu |
| ? | NC_000913 | 4603777 = | 282 (0.960) | noncoding (79/87 nt) | leuP | tRNA‑Leu | |||||
| * | ? | NC_000913 | = 3980289 | 243 (0.900) | 75 (0.260) +CCC |
14/162 | 23.9 | 23.0% | noncoding (71/87 nt) | leuT | tRNA‑Leu |
| ? | NC_000913 | 3980290 = | 253 (0.860) | noncoding (72/87 nt) | leuT | tRNA‑Leu | |||||
| * | ? | NC_000913 | 1409923 = | 305 (1.040) | 9 (0.040) | 9/132 | 23.9 | 3.9% | coding (50/936 nt) | ydaO | hypothetical protein |
| ? | NC_000913 | = 1432982 | 220 (1.050) | intergenic (‑701/+227) | ynaE/ynaF | hypothetical protein/putative filament protein | |||||