mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
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 | ||
| * | CP009273 | 2,170,734 | 0 | G | T | 42.7% | 40.5 / 56.8 | 96 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 838,659 | 0 | C | G | 34.8% | 118.8 / 16.9 | 71 | A291G (GCC→GGC) ‡ | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 838,652 | 0 | T | G | 33.3% | 104.7 / 10.3 | 72 | F289V (TTT→GTT) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 4,234,527 | 0 | C | G | 26.4% | 194.4 / 12.3 | 92 | L159L (CTG→CTC) | malF | maltose transporter subunit |
| * | CP009273 | 838,658 | 0 | G | T | 25.4% | 114.1 / 11.4 | 71 | A291S (GCC→TCC) ‡ | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 4,402,608 | 0 | G | T | 25.0% | 128.0 / 11.1 | 64 | L135F (TTG→TTT) | yjfM | DUF1190 family protein |
| * | CP009273 | 4,234,581 | 0 | G | T | 20.4% | 192.5 / 14.7 | 93 | G141G (GGC→GGA) | malF | maltose transporter subunit |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 1203261 | 66 (0.720) | 16 (0.200) | 12/236 | 3.3 | 20.8% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 64 (0.790) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 4532499 = | 38 (0.410) | 15 (0.180) | 10/250 | 4.1 | 25.3% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 53 (0.620) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | = 4532507 | 40 (0.440) | 12 (0.140) | 6/250 | 5.6 | 21.0% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 53 (0.620) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | = 3180307 | NA (NA) | 3 (0.030) | 3/264 | 7.4 | 2.7% | coding (439/906 nt) | insD1 | IS2 transposase TnpB |
| ? | CP009273 | 3202913 = | 110 (1.200) | coding (990/1014 nt) | tsaD | tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; glycation binding protein | |||||
| * | ? | CP009273 | 2824679 = | 130 (1.420) | 3 (0.030) | 3/266 | 7.4 | 2.7% | coding (970/1515 nt) | norR | anaerobic nitric oxide reductase DNA‑binding transcriptional activator |
| ? | CP009273 | = 3789821 | 89 (0.980) | coding (483/960 nt) | waaC | ADP‑heptose:LPS heptosyl transferase I | |||||
| * | ? | CP009273 | = 1611694 | 96 (1.050) | 3 (0.030) | 3/264 | 7.4 | 2.7% | coding (410/1191 nt) | ydeA | arabinose efflux transporter, arabinose‑inducible |
| ? | CP009273 | = 4321034 | 125 (1.380) | coding (716/1503 nt) | proP | proline/glycine betaine transporter | |||||
| * | ? | CP009273 | 2989720 = | NA (NA) | 10 (0.110) | 3/268 | 7.5 | 8.9% | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | CP009273 | = 3358726 | 102 (1.110) | pseudogene (183/367 nt) | yhcE | pseudogene fragment; interrupted by IS5 | |||||
| * | ? | CP009273 | = 539204 | 105 (1.140) | 3 (0.030) | 3/268 | 7.5 | 2.8% | coding (299/786 nt) | allE | S‑ureidoglycine aminohydrolase |
| ? | CP009273 | 539209 = | 105 (1.140) | coding (294/786 nt) | allE | S‑ureidoglycine aminohydrolase | |||||