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 (highest frequency 20 of 24 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,286,965 | 0 | A | G | 62.7% | 30.1 / 44.2 | 51 | intergenic (+439/+101) | narI/rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| * | NC_000913 | 566,245 | 0 | G | A | 55.6% | 2.5 / 69.9 | 54 | pseudogene (132/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 2,857,141 | 1 | . | G | 54.8% | 56.1 / 47.8 | 31 | coding (49/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 566,173 | 0 | C | G | 52.8% | 16.6 / 126.9 | 72 | pseudogene (204/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 2,857,144 | 0 | C | G | 51.7% | 14.9 / 43.5 | 31 | L18V (CTC→GTC) ‡ | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,147 | 0 | A | . | 51.6% | 46.2 / 72.0 | 31 | coding (55/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,148 | 0 | G | . | 51.6% | 47.7 / 66.9 | 31 | coding (56/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 4,296,060 | 0 | C | T | 51.0% | 11.8 / 74.9 | 51 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 2,857,143 | 1 | . | A | 48.4% | 47.3 / 72.3 | 31 | coding (51/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,145 | 0 | T | A | 48.4% | 0.5 / 48.1 | 31 | L18H (CTC→CAC) ‡ | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,146 | 0 | C | G | 48.4% | ‑0.1 / 56.5 | 31 | L18L (CTC→CTG) ‡ | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 566,277 | 0 | C | T | 48.3% | 13.9 / 71.0 | 58 | pseudogene (100/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 566,323 | 0 | C | T | 46.0% | 15.1 / 56.0 | 50 | pseudogene (54/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 566,205 | 0 | T | C | 45.9% | 1.4 / 81.0 | 61 | pseudogene (172/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 2,857,142 | 0 | A | G | 45.2% | 1.2 / 35.6 | 31 | Y17C (TAT→TGT) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,143 | 0 | T | A | 45.2% | 11.5 / 40.5 | 31 | Y17* (TAT→TAA) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 566,326 | 0 | T | C | 43.8% | 4.4 / 58.3 | 50 | pseudogene (51/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 3,647,481 | 0 | T | C | 43.0% | 16.1 / 110.8 | 87 | C395R (TGC→CGC) | gor | glutathione oxidoreductase |
| * | NC_000913 | 566,332 | 0 | T | G | 42.0% | 15.6 / 81.7 | 50 | pseudogene (45/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 4,518,992 | 0 | C | . | 33.9% | 126.5 / 66.0 | 56 | pseudogene (272/504 nt) | insB1 | IS1 transposase B,IS, phage, Tn, Transposon‑related functions, extrachromosomal, transposon 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 | = 4542690 | 10 (0.230) | 4 (0.100) | 4/198 | 3.8 | 14.2% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 39 (0.960) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 422432 = | 52 (1.170) | 4 (0.100) | 3/204 | 4.3 | 7.5% | intergenic (+73/‑86) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| ? | NC_000913 | = 422428 | NA (NA) | intergenic (+69/‑90) | proY/malZ | proline‑specific permease/maltodextrin glucosidase | |||||