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 | 33.6% | 66.5 / 56.3 | 110 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 104,041 | 0 | G | T | 32.8% | 95.7 / 28.0 | 67 | intergenic (+80/‑151) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 104,042 | 0 | A | T | 30.3% | 151.5 / 23.7 | 66 | intergenic (+81/‑150) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 838,652 | 0 | T | G | 30.2% | 216.1 / 19.0 | 116 | F289V (TTT→GTT) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 2,178,908 | 0 | T | G | 26.7% | 142.6 / 10.1 | 75 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | CP009273 | 4,402,656 | 0 | C | A | 24.5% | 95.5 / 14.0 | 53 | N151K (AAC→AAA) | yjfM | DUF1190 family protein |
| * | CP009273 | 2,632,624 | 0 | C | G | 22.3% | 258.5 / 13.2 | 95 | E7Q (GAA→CAA) | yfgM | putative anti‑RcsB factor |
| * | CP009273 | 838,659 | 0 | C | G | 20.9% | 282.1 / 16.7 | 117 | A291G (GCC→GGC) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 2,170,746 | 0 | C | A | 20.9% | 221.5 / 11.4 | 121 | intergenic (‑63/+245) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 298,227 | 0 | C | A | 20.5% | 162.1 / 14.6 | 73 | D20Y (GAT→TAT) | paoA | PaoABC aldehyde oxidoreductase, 2Fe‑2S 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 | = 4532507 | 39 (0.400) | 13 (0.140) | 9/250 | 4.6 | 22.3% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 54 (0.590) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | 1364953 = | 92 (0.930) | 14 (0.180) +29 bp |
3/210 | 6.4 | 16.3% | coding (481/1680 nt) | ycjM | alpha amylase catalytic domain family protein |
| ? | CP009273 | 3645390 = | NA (NA) | pseudogene (740/741 nt) | yhiS | pseudogene | |||||
| * | ? | CP009273 | = 2871131 | 176 (1.780) | 4 (0.040) | 4/246 | 6.6 | 2.0% | intergenic (+154/+797) | iap/ygbF | aminopeptidase in alkaline phosphatase isozyme conversion/CRISPR adaptation ssRNA endonuclease |
| ? | CP009273 | 2871498 = | 238 (2.630) | intergenic (+521/+430) | iap/ygbF | aminopeptidase in alkaline phosphatase isozyme conversion/CRISPR adaptation ssRNA endonuclease | |||||
| * | ? | CP009273 | 1716873 = | 101 (1.020) | 3 (0.030) | 3/246 | 7.2 | 3.1% | coding (496/2013 nt) | ydhK | putative efflux protein (PET) component of YdhJK efflux pump |
| ? | CP009273 | = 1716869 | 95 (1.050) | coding (492/2013 nt) | ydhK | putative efflux protein (PET) component of YdhJK efflux pump | |||||
| * | ? | CP009273 | = 2684056 | 124 (1.260) | 4 (0.040) | 3/260 | 7.5 | 3.7% | coding (402/1428 nt) | glrK | sensor protein kinase regulating glmY sRNA in two‑component system with response regulator GlrR |
| ? | CP009273 | 2727945 = | 88 (0.920) | coding (449/732 nt) | yfiH | UPF0124 family protein | |||||
| * | ? | CP009273 | = 2525021 | 87 (0.880) | 3 (0.030) | 3/268 | 7.6 | 3.3% | coding (200/762 nt) | cysZ | EI24 family inner membrane protein; putative sulfate transporter |
| ? | CP009273 | 2525028 = | 87 (0.880) | coding (207/762 nt) | cysZ | EI24 family inner membrane protein; putative sulfate transporter | |||||