mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.32.1 revision aa8f2595a244
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 | 566,205 | 0 | T | C | 61.1% | 87.5 / 100.6 | 95 | pseudogene (172/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 566,173 | 0 | C | G | 58.9% | 78.4 / 180.4 | 112 | pseudogene (204/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 566,245 | 0 | G | A | 52.3% | ‑3.3 / 131.5 | 88 | pseudogene (132/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 1,097,392 | 1 | . | G | 47.4% | 7.4 / 38.7 | 19 | intergenic (+563/+173) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| * | NC_000913 | 380,012 | 1 | . | G | 46.9% | 101.8 / 143.6 | 64 | intergenic (‑131/+57) | frmR/yaiO | regulator protein that represses frmRAB operon/outer membrane protein |
| * | NC_000913 | 566,277 | 0 | C | T | 44.4% | 53.1 / 107.9 | 90 | pseudogene (100/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 566,323 | 0 | C | T | 34.6% | 99.4 / 72.4 | 81 | pseudogene (54/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 566,326 | 0 | T | C | 32.1% | 97.0 / 75.5 | 84 | pseudogene (51/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 3,001,297 | 1 | . | G | 32.1% | 66.7 / 74.4 | 53 | coding (953/2259 nt) | xdhA | xanthine dehydrogenase, molybdenum binding subunit |
| * | NC_000913 | 566,332 | 0 | T | G | 30.9% | 132.3 / 94.7 | 84 | pseudogene (45/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 4,296,060 | 0 | C | T | 27.6% | 136.0 / 52.6 | 76 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 525,684 | 0 | A | C | 26.4% | 125.4 / 42.2 | 53 | G808G (GGA→GGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain, putative neighboring cell growth inhibitor |
| * | NC_000913 | 566,356 | 0 | T | C | 24.4% | 144.8 / 48.7 | 82 | pseudogene (21/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| 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 | = 271485 | 19 (0.300) | 8 (0.120) +GAAT |
3/204 | 5.9 | 29.4% | noncoding (945/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | 1470241 = | NA (NA) | noncoding (946/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 271485 | 19 (0.300) | 8 (0.120) +GAAT |
3/204 | 5.9 | 27.9% | noncoding (945/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | 271486 = | 23 (0.340) | noncoding (946/1221 nt) | IS30 | repeat region | |||||