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 436 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,460,900 | 1 | . | C | 67.0% | 490.1 / 245.5 | 206 | intergenic (+234/‑132) | fadL/b2345 | FadL/hypothetical protein |
| * | NC_000913 | 306,757 | 0 | A | G | 66.4% | 349.5 / inf | 366 | R600R (CGT→CGC) | yagX | hypothetical protein |
| * | NC_000913 | 4,230,115 | 0 | A | G | 66.1% | 599.0 / inf | 570 | V233A (GTA→GCA) | lysC | aspartokinase III |
| * | NC_000913 | 4,266,879 | 0 | A | G | 66.1% | 590.4 / inf | 573 | intergenic (+993/‑114) | tyrB/aphA | tyrosine aminotransferase/diadenosine tetraphosphatase |
| * | NC_000913 | 4,023,045 | 0 | G | A | 65.8% | 597.6 / inf | 489 | A156A (GCG→GCA) | yigC | putative oxidoreductase |
| * | NC_000913 | 4,426,466 | 0 | T | C | 65.5% | 503.5 / inf | 504 | intergenic (‑135/‑47) | ytfB/b4207 | hypothetical protein/FKBP‑type 22KD peptidyl‑prolyl cis‑trans isomerase (rotamase) |
| * | NC_000913 | 3,320,557 | 0 | T | C | 64.5% | 534.9 / inf | 584 | P385P (CCA→CCG) | mrsA | MrsA |
| * | NC_000913 | 312,219 | 0 | T | C | 64.2% | 362.7 / inf | 433 | intergenic (‑218/‑1362) | ykgM/eaeH | putative ribosomal protein/attaching and effacing protein |
| * | NC_000913 | 3,059,022 | 0 | T | C | 64.1% | 352.5 / inf | 404 | G51G (GGT→GGC) | sbm | methylmalonyl‑CoA mutase |
| * | NC_000913 | 1,125,943 | 0 | A | G | 63.9% | 202.9 / 236.2 | 227 | L188L (TTA→TTG) | yceH | hypothetical protein |
| * | NC_000913 | 1,438,660 | 0 | T | C | 63.6% | 161.0 / 227.0 | 207 | D50G (GAC→GGC) | ydbK | putative oxidoreductase Fe‑S subunit |
| * | NC_000913 | 2,702,744 | 0 | T | C | 63.4% | 323.5 / inf | 381 | T196A (ACC→GCC) | lepB | leader peptidase |
| * | NC_000913 | 3,312,337 | 0 | A | G | 63.3% | 397.2 / inf | 503 | I440T (ATC→ACC) | infB | protein chain initiation factor IF‑2 |
| * | NC_000913 | 2,072,182 | 0 | T | C | 63.2% | 132.3 / 179.0 | 172 | G874G (GGT→GGC) | b2000 | outer membrane fluffing protein |
| * | NC_000913 | 1,198,459 | 0 | A | G | 62.5% | 168.7 / 295.7 | 248 | E181G (GAG→GGG) | lit | Lit |
| * | NC_000913 | 3,212,115 | 0 | T | C | 62.5% | 367.5 / inf | 507 | R476R (CGT→CGC) | rpoD | RNA polymerase sigma(70) |
| * | NC_000913 | 1,893,654 | 0 | A | G | 62.4% | 165.4 / 263.5 | 234 | T276A (ACG→GCG) | pabB | p‑aminobenzoate synthetase component I |
| * | NC_000913 | 3,122,609 | 0 | T | C | 62.1% | 303.5 / inf | 427 | E643E (GAA→GAG) | glcF | glycolate oxidase iron‑sulfur subunit |
| * | NC_000913 | 3,087,418 | 0 | A | G | 61.8% | 323.8 / inf | 458 | V372V (GTA→GTG) | galP | galactose‑proton symport of transport system |
| * | NC_000913 | 4,062,416 | 0 | A | G | 61.8% | 444.8 / inf | 674 | W311R (TGG→CGG) | b3876 | putative permease |
| Marginal new junction evidence (lowest skew 10 of 21 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1286098 = | 177 (0.420) | 65 (0.240) | 32/122 | 5.8 | 33.1% | coding (167/276 nt) | b1228 | hypothetical protein |
| ? | NC_000913 | = 1286453 | 147 (0.540) | intergenic (‑42/+14) | tpr/tyrV | protamine‑like protein/tRNA‑Tyr | |||||
| * | ? | NC_000913 | 1285931 = | 199 (0.480) | 102 (0.320) | 32/144 | 6.8 | 38.9% | intergenic (+182/‑1) | narI/b1228 | nitrate reductase 1/hypothetical protein |
| ? | NC_000913 | = 1286464 | 167 (0.520) | intergenic (‑53/+3) | tpr/tyrV | protamine‑like protein/tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 164567 | 221 (0.530) | 124 (0.300) +TG |
41/182 | 7.0 | 35.7% | coding (31/207 nt) | b4501 | hypothetical protein |
| ? | NC_000913 | = 3957089 | 235 (0.560) | intergenic (+23/+61) | ilvC/ppiC | ketol‑acid reductoisomerase/peptidyl‑prolyl cis‑trans isomerase C | |||||
| * | ? | NC_000913 | = 4008398 | 203 (0.500) | 162 (0.400) +AAGA |
36/174 | 7.4 | 45.2% | coding (481/516 nt) | b4555 | hypothetical protein |
| ? | NC_000913 | 4008399 = | 203 (0.480) | coding (482/516 nt) | b4555 | hypothetical protein | |||||
| * | ? | NC_000913 | = 2072378 | 154 (0.390) | 51 (0.130) +CCC |
29/168 | 8.3 | 24.9% | coding (2818/3120 nt) | b2000 | outer membrane fluffing protein |
| ? | NC_000913 | 2072379 = | 154 (0.370) | coding (2819/3120 nt) | b2000 | outer membrane fluffing protein | |||||
| * | ? | NC_000913 | = 1418811 | 180 (0.460) | 61 (0.150) +GGG |
18/168 | 10.5 | 25.3% | coding (104/423 nt) | ydaT | hypothetical protein |
| ? | NC_000913 | 1418812 = | 180 (0.430) | coding (105/423 nt) | ydaT | hypothetical protein | |||||
| * | ? | NC_000913 | 4540250 = | 256 (0.610) | 18 (0.050) | 17/168 | 10.7 | 5.4% | intergenic (+49/‑433) | fimE/fimA | FimE/major type 1 subunit fimbrin |
| ? | NC_000913 | 4540564 = | 405 (1.070) | intergenic (+363/‑119) | fimE/fimA | FimE/major type 1 subunit fimbrin | |||||
| * | ? | NC_000913 | = 4540258 | 261 (0.620) | 11 (0.030) | 11/168 | 12.5 | 3.3% | intergenic (+57/‑425) | fimE/fimA | FimE/major type 1 subunit fimbrin |
| ? | NC_000913 | = 4540554 | 405 (1.070) | intergenic (+353/‑129) | fimE/fimA | FimE/major type 1 subunit fimbrin | |||||
| * | ? | NC_000913 | = 3706170 | 572 (1.370) | 9 (0.020) | 8/166 | 13.5 | 1.5% | intergenic (‑836/+75) | dppA/proK | dipeptide transport protein/tRNA‑Pro |
| ? | NC_000913 | 3706273 = | 658 (1.760) | noncoding (49/77 nt) | proK | tRNA‑Pro | |||||
| * | ? | NC_000913 | = 2513633 | NA (NA) | 8 (0.020) | 8/180 | 13.9 | 1.4% | intergenic (+170/+30) | yi813/b2395 | IS186 hypothetical protein/hypothetical protein |
| ? | NC_000913 | 4541173 = | 566 (1.350) | coding (491/549 nt) | fimA | major type 1 subunit fimbrin | |||||