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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,043,341 | 0 | G | A | 43.3% | 54.6 / 111.3 | 97 | intergenic (+443/+127) | yodB/serU | putative cytochrome/tRNA‑Ser |
| * | NC_000913 | 4,604,344 | 0 | C | T | 35.1% | 158.3 / 24.5 | 94 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,111,747 | 0 | G | T | 29.5% | 149.0 / 20.9 | 61 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.1% | 153.7 / 59.2 | 89 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 29,496 | 0 | T | A | 25.8% | 146.7 / 19.2 | 66 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 3,206,435 | 0 | C | T | 25.4% | 131.9 / 23.2 | 67 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,001,918 | 0 | A | C | 25.0% | 136.2 / 10.6 | 64 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 3,206,444 | 0 | T | A | 23.1% | 150.2 / 14.5 | 65 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,406,500 | 0 | G | A | 22.1% | 417.1 / 99.7 | 201 | R48C (CGT→TGT) | lrhA | DNA‑binding transcriptional dual regulator LrhA |
| * | NC_000913 | 646,747 | 0 | T | G | 21.6% | 185.0 / 10.9 | 74 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| 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 | 1207790 = | 105 (0.930) | 26 (0.260) | 18/244 | 3.8 | 25.7% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 58 (0.580) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 273955 = | NA (NA) | 26 (0.230) | 14/276 | 5.3 | 19.7% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 535200 = | 106 (0.940) | coding (1285/1782 nt) | gcl | glyoxylate carboligase | |||||
| * | ? | NC_000913 | 2406668 = | 99 (0.880) | 15 (0.130) | 13/276 | 5.6 | 13.2% | intergenic (‑27/‑893) | lrhA/alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA |
| ? | NC_000913 | 3583428 = | NA (NA) | noncoding (1/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | = 291401 | NA (NA) | 15 (0.130) | 13/276 | 5.6 | 13.2% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 2406668 = | 99 (0.880) | intergenic (‑27/‑893) | lrhA/alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA | |||||
| * | ? | NC_000913 | = 2406676 | 107 (0.950) | 13 (0.120) | 12/276 | 5.9 | 10.8% | intergenic (‑35/‑885) | lrhA/alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA |
| ? | NC_000913 | = 3584195 | NA (NA) | noncoding (768/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | = 1207805 | 93 (0.820) | 12 (0.120) | 10/244 | 5.9 | 14.6% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 58 (0.580) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1050545 | NA (NA) | 13 (0.120) | 12/276 | 5.9 | 10.8% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 2406676 | 107 (0.950) | intergenic (‑35/‑885) | lrhA/alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA | |||||
| * | ? | NC_000913 | = 535203 | 106 (0.950) | 8 (0.070) | 8/272 | 7.1 | 7.0% | coding (1288/1782 nt) | gcl | glyoxylate carboligase |
| ? | NC_000913 | = 575785 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 1049778 = | NA (NA) | 6 (0.050) | 6/274 | 8.0 | 5.8% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 2406668 = | 99 (0.880) | intergenic (‑27/‑893) | lrhA/alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA | |||||
| * | ? | NC_000913 | 279163 = | NA (NA) | 5 (0.040) | 5/276 | 8.5 | 4.5% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 2406676 | 107 (0.950) | intergenic (‑35/‑885) | lrhA/alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA | |||||