mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 288 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 357,890 | 0 | C | A | 51.5% | 38.8 / 103.3 | 69 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 1,825,061 | 0 | G | A | 45.5% | 76.9 / 41.9 | 66 | intergenic (‑124/+79) | ves/spy | cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced |
| * | NC_000913 | 5,159 | 0 | G | A | 42.2% | 81.6 / 45.2 | 84 | intergenic (+139/‑75) | thrC/yaaX | L‑threonine synthase/DUF2502 family putative periplasmic protein |
| * | NC_000913 | 2,434,882 | 0 | T | G | 41.9% | 100.7 / 10.6 | 62 | Y252S (TAC→TCC) | truA | tRNA pseudouridine(38‑40) synthase |
| * | NC_000913 | 357,880 | 0 | T | C | 41.9% | 94.4 / 25.2 | 75 | K271E (AAA→GAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 1,825,056 | 0 | G | A | 40.7% | 86.1 / 25.0 | 60 | intergenic (‑119/+84) | ves/spy | cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced |
| * | NC_000913 | 3,556,200 | 0 | G | A | 40.3% | 81.8 / 28.1 | 68 | S217F (TCC→TTC) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 357,875 | 0 | A | T | 40.3% | 103.6 / 33.8 | 79 | N272K (AAT→AAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 1,825,031 | 0 | C | T | 39.7% | 80.5 / 36.2 | 63 | intergenic (‑94/+109) | ves/spy | cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced |
| * | NC_000913 | 941,713 | 0 | T | G | 39.5% | 136.7 / 27.6 | 82 | V252G (GTG→GGG) | dmsA | dimethyl sulfoxide reductase, anaerobic, subunit A |
| * | NC_000913 | 4,379,638 | 0 | G | A | 39.0% | 81.2 / 21.6 | 60 | F45F (TTC→TTT) | frdC | fumarate reductase (anaerobic), membrane anchor subunit |
| * | NC_000913 | 1,397,830 | 0 | T | C | 38.5% | 83.9 / 17.7 | 65 | I265V (ATT→GTT) | uspE | stress‑induced protein |
| * | NC_000913 | 2,326,450 | 0 | T | G | 38.5% | 96.6 / 10.6 | 52 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 5,162 | 0 | T | A | 38.1% | 124.7 / 40.9 | 85 | intergenic (+142/‑72) | thrC/yaaX | L‑threonine synthase/DUF2502 family putative periplasmic protein |
| * | NC_000913 | 3,556,207 | 0 | T | C | 37.1% | 114.7 / 13.5 | 71 | S215G (AGT→GGT) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 1,478,324 | 0 | T | G | 36.6% | 112.1 / 18.9 | 73 | G33G (GGT→GGG) | ynbB | putative CDP‑diglyceride synthase |
| * | NC_000913 | 2,984,718 | 0 | G | C | 36.5% | 72.5 / 24.6 | 56 | P292R (CCG→CGG) | yqeF | short chain acyltransferase |
| * | NC_000913 | 2,001,911 | 0 | G | A | 36.5% | 102.8 / 34.9 | 74 | intergenic (‑122/+199) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein (flagellin) |
| * | NC_000913 | 357,873 | 0 | C | T | 36.2% | 110.4 / 36.2 | 81 | S273N (AGC→AAC) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 3,995,457 | 0 | T | G | 36.2% | 129.6 / 15.7 | 69 | G232G (GGT→GGG) | dapF | diaminopimelate epimerase |
| 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 | 1207790 = | 50 (0.620) | 17 (0.240) | 16/266 | 6.4 | 23.7% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 65 (0.910) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 4542690 | 117 (1.460) | 19 (0.250) | 16/280 | 6.9 | 14.6% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 112 (1.490) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4542682 = | 120 (1.500) | 18 (0.240) | 16/280 | 6.9 | 13.7% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 115 (1.530) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 1207805 | 57 (0.710) | 13 (0.180) | 12/266 | 8.0 | 18.6% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 63 (0.880) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||