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 26 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 329,839 | 0 | A | G | 66.3% | 103.0 / 65.2 | 83 | E126G (GAA→GGA) | betT | choline transporter of high affinity |
| * | NC_000913 | 2,857,141 | 1 | . | G | 57.9% | 74.0 / 53.5 | 38 | coding (49/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,147 | 0 | A | . | 57.9% | ‑3.5 / 73.4 | 38 | coding (55/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,148 | 0 | G | . | 57.9% | 4.4 / 69.8 | 38 | coding (56/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 3,709,555 | 2 | . | C | 54.6% | 179.7 / 159.4 | 97 | coding (921/1692 nt) | eptB | KDO phosphoethanolamine transferase, Ca(2+)‑inducible |
| * | NC_000913 | 3,745,543 | 0 | A | G | 54.5% | 46.3 / 143.5 | 123 | Y247C (TAT→TGT) | yiaN | 2,3‑diketo‑L‑gulonate TRAP transporter large permease protein |
| * | NC_000913 | 4,171,557 | 0 | C | A | 54.2% | 3.8 / 43.1 | 25 | intergenic (+13/‑80) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon |
| * | NC_000913 | 2,857,144 | 0 | C | G | 52.9% | 27.1 / 49.3 | 38 | L18V (CTC→GTC) ‡ | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 3,759,629 | 0 | G | A | 50.0% | 8.6 / 70.3 | 58 | A78V (GCG→GTG) | selB | selenocysteinyl‑tRNA‑specific translation factor |
| * | NC_000913 | 1,286,965 | 0 | A | G | 49.5% | 16.8 / 143.8 | 101 | intergenic (+439/+101) | narI/rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| * | NC_000913 | 566,173 | 0 | C | G | 49.3% | 3.8 / 287.4 | 148 | pseudogene (204/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 566,205 | 0 | T | C | 47.5% | ‑6.0 / 196.5 | 139 | pseudogene (172/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 2,857,143 | 1 | . | A | 47.4% | 58.3 / 87.4 | 38 | coding (51/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,142 | 0 | A | G | 42.1% | 10.4 / 41.4 | 38 | Y17C (TAT→TGT) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,143 | 0 | T | A | 42.1% | 27.5 / 44.1 | 38 | Y17* (TAT→TAA) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,145 | 0 | T | A | 42.1% | 22.3 / 50.1 | 38 | L18H (CTC→CAC) ‡ | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,146 | 0 | C | G | 42.1% | 26.8 / 56.1 | 38 | L18L (CTC→CTG) ‡ | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 566,277 | 0 | C | T | 41.8% | 71.5 / 118.9 | 110 | pseudogene (100/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 3,664,357 | 2 | . | G | 38.0% | 66.4 / 185.7 | 108 | coding (262/729 nt) | gadW | transcriptional activator of gadA and gadBC, repressor of gadX |
| * | NC_000913 | 4,296,060 | 0 | C | T | 37.2% | 78.9 / 71.2 | 78 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| 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 | 17 (0.240) | 12 (0.190) | 9/198 | 4.1 | 24.9% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 57 (0.880) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 1709161 | 41 (0.590) | 7 (0.100) +CCC |
3/208 | 6.8 | 14.3% | coding (20/1059 nt) | rsxD | SoxR iron‑sulfur cluster reduction factor component, putative membrane protein of electron transport complex |
| ? | NC_000913 | 1709173 = | 45 (0.640) | coding (32/1059 nt) | rsxD | SoxR iron‑sulfur cluster reduction factor component, putative membrane protein of electron transport complex | |||||
| * | ? | NC_000913 | = 381469 | NA (NA) | 3 (0.040) | 3/210 | 6.8 | NA | noncoding (210/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381481 | NA (NA) | noncoding (222/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 3610388 | 71 (1.010) | 3 (0.040) | 3/212 | 6.9 | 4.1% | coding (434/558 nt) | dcrB | putative lipoprotein |
| ? | NC_000913 | 3610392 = | 69 (1.000) | coding (438/558 nt) | dcrB | putative lipoprotein | |||||