mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
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 | 3,875,521 | 0 | T | C | 23.9% | 107.4 / 13.2 | 71 | A28A (GCT→GCC) | yidX | putative lipoprotein |
| * | NC_000913 | 3,875,529 | 0 | C | G | 20.0% | 144.3 / 10.4 | 73 | S31C (TCC→TGC) | yidX | putative lipoprotein |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 88 (0.640) | 25 (0.190) | 19/486 | 5.1 | 21.9% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 96 (0.750) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 87 (0.630) | 17 (0.130) | 14/486 | 6.5 | 16.0% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 97 (0.750) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 279163 = | NA (NA) | 102 (0.740) | 5/518 | 10.6 | 45.1% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 2760086 | 124 (0.900) | coding (1102/1410 nt) | yfjI | CP4‑57 prophage; uncharacterized protein | |||||
| * | ? | NC_000913 | 4542682 = | 29 (0.210) | 4 (0.030) | 4/500 | 11.0 | 6.6% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 85 (0.640) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 1769517 = | 100 (0.730) | 4 (0.030) | 3/498 | 11.6 | 3.9% | coding (444/1113 nt) | ydiK | UPF0118 family inner membrane protein |
| ? | NC_000913 | = 1769513 | 99 (0.750) | coding (440/1113 nt) | ydiK | UPF0118 family inner membrane protein | |||||
| * | ? | NC_000913 | = 4542690 | 30 (0.220) | 3 (0.020) | 3/500 | 11.7 | 5.0% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 85 (0.640) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 1217323 | 147 (1.070) | 3 (0.020) | 3/512 | 11.8 | 2.0% | intergenic (+327/‑5) | ymgC/ycgG | Blue light, low temperature and stress induced protein/putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase |
| ? | NC_000913 | 1217328 = | 147 (1.080) | coding (1/1524 nt) | ycgG | putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase | |||||
| * | ? | NC_000913 | 916053 = | 111 (0.810) | 3 (0.020) | 3/510 | 11.8 | 2.3% | intergenic (‑6/‑420) | aqpZ/ybjD | aquaporin Z/putative OLD family ATP‑dependent endonuclease; DUF2813 family protein |
| ? | NC_000913 | 923904 = | 148 (1.100) | coding (641/2277 nt) | clpA | ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity | |||||
| * | ? | NC_000913 | = 3498383 | 155 (1.130) | 3 (0.020) | 3/518 | 11.9 | 1.9% | coding (556/1374 nt) | cysG | fused siroheme synthase 1,3‑dimethyluroporphyriongen III dehydrogenase and siroheme ferrochelatase/uroporphyrinogen methyltransferase |
| ? | NC_000913 | 3498387 = | 153 (1.120) | coding (560/1374 nt) | cysG | fused siroheme synthase 1,3‑dimethyluroporphyriongen III dehydrogenase and siroheme ferrochelatase/uroporphyrinogen methyltransferase | |||||
| * | ? | NC_000913 | 1753138 = | 94 (0.690) | 3 (0.020) | 3/518 | 11.9 | 3.0% | coding (693/2103 nt) | ydhV | putative oxidoreductase subunit |
| ? | NC_000913 | 1753143 = | 101 (0.740) | coding (688/2103 nt) | ydhV | putative oxidoreductase subunit | |||||