mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 325 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 580,498 | 0 | G | A | 74.5% | 17.9 / 22.6 | 47 | V148I (GTT→ATT) | nohB | bacteriophage DNA packaging protein |
| * | NC_000913 | 3,941,090 | 0 | T | C | 74.0% | 183.1 / 130.3 | 192 | noncoding (34/76 nt) | gltU | tRNA‑Val |
| * | NC_000913 | 1,138,339 | 0 | G | A | 71.9% | 369.0 / 130.4 | 217 | V247I (GTT→ATT) | flgK | hook‑filament junction protein 1 |
| * | NC_000913 | 1,931,339 | 0 | C | T | 71.4% | 325.3 / 125.0 | 196 | A430A (GCG→GCA) | edd | 6‑phosphogluconate dehydratase |
| * | NC_000913 | 1,805,274 | 0 | T | C | 71.1% | 226.2 / 154.5 | 197 | L295P (CTG→CCG) | pfkB | 6‑phosphofructokinase II |
| * | NC_000913 | 31,762 | 0 | G | A | 69.2% | 547.4 / 238.5 | 351 | G316S (GGT→AGT) | carB | carbamoyl‑phosphate synthase large subunit |
| * | NC_000913 | 1,546,326 | 0 | A | G | 68.9% | 215.5 / 175.8 | 209 | Y301C (TAC→TGC) | fdnG | formate dehydrogenase‑N, nitrate‑inducible, alpha subunit |
| * | NC_000913 | 2,460,900 | 1 | . | C | 68.5% | 357.2 / 179.7 | 165 | intergenic (+234/‑132) | fadL/b2345 | FadL/hypothetical protein |
| * | NC_000913 | 1,123,332 | 0 | A | G | 68.4% | 166.0 / 143.4 | 176 | intergenic (‑55/+9) | grxB/yceL | glutaredoxin 2/hypothetical protein |
| * | NC_000913 | 880,316 | 0 | G | A | 68.0% | 344.3 / 183.3 | 247 | D123N (GAC→AAC) | dacC | D‑alanyl‑D‑alanine carboxypeptidase |
| * | NC_000913 | 977,677 | 0 | A | G | 68.0% | 199.0 / 177.5 | 206 | H710R (CAC→CGC) | mukB | MukB |
| * | NC_000913 | 2,282,847 | 0 | T | C | 67.7% | 242.3 / 219.9 | 257 | V151A (GTG→GCG) | yejM | putative sulfatase |
| * | NC_000913 | 1,634,023 | 0 | A | T | 67.6% | 33.1 / 35.5 | 37 | G123G (GGT→GGA) | nohA | NohA |
| * | NC_000913 | 3,489,264 | 0 | C | T | 66.2% | 492.8 / 290.4 | 370 | intergenic (‑7/+98) | yhfG/ppiA | hypothetical protein/peptidyl‑prolyl cis‑trans isomerase A |
| * | NC_000913 | 2,007,515 | 0 | T | C | 65.4% | 160.9 / 204.9 | 214 | V5A (GTT→GCT) | yedF | hypothetical protein |
| * | NC_000913 | 395,853 | 0 | A | G | 64.1% | 217.5 / 304.8 | 304 | intergenic (‑342/‑10) | yaiH/sbmA | hypothetical protein/SbmA |
| * | NC_000913 | 708,071 | 1 | . | G | 64.1% | 452.0 / 292.9 | 220 | coding (515/1407 nt) | ybfM | hypothetical protein |
| * | NC_000913 | 156,800 | 0 | A | G | 63.8% | 197.0 / 256.2 | 268 | G28G (GGT→GGC) | yadN | putative fimbrial‑like protein |
| * | NC_000913 | 3,609,489 | 0 | A | G | 62.5% | 183.4 / 307.1 | 296 | intergenic (‑83/‑7) | yhhS/b3474 | putative transport/hypothetical protein |
| * | NC_000913 | 3,913,862 | 0 | T | C | 62.4% | 281.5 / inf | 474 | D381G (GAT→GGT) | atpD | membrane‑bound ATP synthase, F1 sector, beta‑subunit |
| 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 | = 4099302 | 182 (0.640) | 92 (0.310) +GGG |
44/164 | 4.9 | 33.1% | coding (41/993 nt) | kdgT | 2‑keto‑3‑deoxy‑D‑gluconate transport system |
| ? | NC_000913 | 4099303 = | 188 (0.610) | coding (42/993 nt) | kdgT | 2‑keto‑3‑deoxy‑D‑gluconate transport system | |||||
| * | ? | NC_000913 | = 3423225 | NA (NA) | 34 (0.130) +CCCCCCCCC |
33/156 | 6.1 | NA | noncoding (1196/2904 nt) | rrlD | 23S ribosomal RNA |
| ? | NC_000913 | = 3942515 | NA (NA) | noncoding (1190/2906 nt) | rrlC | 23S ribosomal RNA | |||||
| * | ? | NC_000913 | = 4008398 | 99 (0.330) | 97 (0.330) +AAGA |
27/172 | 7.8 | 50.3% | coding (481/516 nt) | b4555 | hypothetical protein |
| ? | NC_000913 | 4008399 = | 99 (0.320) | coding (482/516 nt) | b4555 | hypothetical protein | |||||
| * | ? | NC_000913 | = 284865 | 205 (0.710) | 67 (0.230) +GGG |
22/166 | 8.6 | 24.5% | coding (247/1383 nt) | yagG | putative permease |
| ? | NC_000913 | 284866 = | 207 (0.670) | coding (248/1383 nt) | yagG | putative permease | |||||
| * | ? | NC_000913 | 1801057 = | 203 (0.660) | 22 (0.070) | 13/184 | 11.5 | 9.8% | intergenic (‑463/‑61) | thrS/b1721m | threonine tRNA synthetase/ankyrin repeat protein |
| ? | NC_000913 | 2066963 = | NA (NA) | coding (334/420 nt) | b1995 | hypothetical protein | |||||
| * | ? | NC_000913 | 1197677 = | 208 (0.680) | 6 (0.030) | 6/144 | 12.8 | 3.2% | intergenic (‑217/‑241) | ymfE/lit | hypothetical protein/Lit |
| ? | NC_000913 | = 1197708 | 206 (0.860) | intergenic (‑248/‑210) | ymfE/lit | hypothetical protein/Lit | |||||
| * | ? | NC_000913 | 1197677 = | 208 (0.680) | 6 (0.020) | 6/160 | 13.4 | 2.8% | intergenic (‑217/‑241) | ymfE/lit | hypothetical protein/Lit |
| ? | NC_000913 | = 1197716 | 239 (0.900) | intergenic (‑256/‑202) | ymfE/lit | hypothetical protein/Lit | |||||
| * | ? | NC_000913 | = 3650860 | NA (NA) | 7 (0.020) | 7/184 | 13.7 | 1.5% | intergenic (‑32/‑731) | trs511/b3506 | IS5 transposase/Slp |
| ? | NC_000913 | 3817115 = | 466 (1.520) | coding (615/618 nt) coding (1689/1689 nt) |
b3646 yicF |
hypothetical protein hypothetical protein |
|||||
| * | ? | NC_000913 | 1197677 = | 208 (0.680) | 6 (0.020) | 6/176 | 13.9 | 2.5% | intergenic (‑217/‑241) | ymfE/lit | hypothetical protein/Lit |
| ? | NC_000913 | = 1197724 | 264 (0.900) | intergenic (‑264/‑194) | ymfE/lit | hypothetical protein/Lit | |||||
| * | ? | NC_000913 | = 4475148 | 399 (1.300) | 6 (0.020) | 5/172 | 14.3 | 1.6% | coding (727/1005 nt) | argI | ornithine carbamoyltransferase 1 |
| ? | NC_000913 | 4475252 = | 378 (1.320) | coding (623/1005 nt) | argI | ornithine carbamoyltransferase 1 | |||||