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 | ||
| * | NC_000913_3_pae_tpiA | 4,422,811 | 0 | C | G | 33.3% | 15.6 / 12.8 | 15 | A17G (GCC→GGC) | ulaE | L‑xylulose 5‑phosphate 3‑epimerase |
| * | NC_000913_3_pae_tpiA | 1,341,732 | 1 | . | A | 30.8% | 13.8 / 14.8 | 13 | intergenic (+5/‑189) | yciM/pyrF | LPS regulatory protein; putative modulator of LpxC proteolysis/orotidine‑5'‑phosphate decarboxylase |
| * | NC_000913_3_pae_tpiA | 1,250,961 | 1 | . | C | 26.7% | 27.9 / 15.4 | 15 | intergenic (‑123/‑105) | dhaK/dhaR | dihydroxyacetone kinase, PTS‑dependent, dihydroxyacetone‑binding subunit/dhaKLM operon transcription activator |
| * | NC_000913_3_pae_tpiA | 1,250,964 | 0 | G | . | 26.7% | 32.1 / 12.3 | 15 | intergenic (‑126/‑102) | dhaK/dhaR | dihydroxyacetone kinase, PTS‑dependent, dihydroxyacetone‑binding subunit/dhaKLM operon transcription activator |
| * | NC_000913_3_pae_tpiA | 1,388,284 | 0 | A | T | 26.3% | 28.2 / 12.4 | 19 | intergenic (+23/+21) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| * | NC_000913_3_pae_tpiA | 1,446,357 | 1 | . | T | 25.0% | 31.7 / 14.5 | 16 | intergenic (+151/+21) | ydbL/feaR | DUF1318 family protein/transcriptional activator for tynA and feaB |
| * | NC_000913_3_pae_tpiA | 1,446,362 | 0 | A | . | 25.0% | 34.9 / 10.7 | 16 | intergenic (+156/+16) | ydbL/feaR | DUF1318 family protein/transcriptional activator for tynA and feaB |
| * | NC_000913_3_pae_tpiA | 1,850,719 | 1 | . | T | 22.2% | 40.0 / 14.1 | 18 | intergenic (+26/‑141) | sppA/ansA | protease IV (signal peptide peptidase)/cytoplasmic L‑asparaginase 1 |
| 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_3_pae_tpiA | 3719794 = | 20 (1.600) | 3 (0.260) | 3/242 | 1.3 | 14.4% | intergenic (+26/‑255) | yiaG/cspA | HTH_CROC1 family putative transcriptional regulator/RNA chaperone and antiterminator, cold‑inducible |
| ? | NC_000913_3_pae_tpiA | 3719816 = | 17 (1.460) | intergenic (+48/‑233) | yiaG/cspA | HTH_CROC1 family putative transcriptional regulator/RNA chaperone and antiterminator, cold‑inducible | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3867979 | 13 (1.040) | 3 (0.250) | 3/252 | 1.4 | 17.9% | coding (252/333 nt) | yidQ | DUF1375 family outer membrane protein |
| ? | NC_000913_3_pae_tpiA | = 3868017 | 15 (1.240) | coding (290/333 nt) | yidQ | DUF1375 family outer membrane protein | |||||