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 | 4,295,976 | 0 | C | T | 28.9% | 46.9 / 21.4 | 45 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_pae_tpiA | 3,548,573 | 0 | T | C | 28.2% | 57.6 / 14.2 | 39 | T500A (ACC→GCC) | malQ | 4‑alpha‑glucanotransferase (amylomaltase) |
| * | NC_000913_3_pae_tpiA | 3,548,584 | 0 | T | A | 27.5% | 58.4 / 19.3 | 41 | E496V (GAA→GTA) | malQ | 4‑alpha‑glucanotransferase (amylomaltase) |
| * | NC_000913_3_pae_tpiA | 1,296,950 | 1 | . | T | 20.0% | 47.8 / 13.0 | 20 | coding (1172/2676 nt) | adhE | fused acetaldehyde‑CoA dehydrogenase/iron‑dependent alcohol dehydrogenase/pyruvate‑formate lyase deactivase |
| Marginal new junction evidence (lowest skew 10 of 92 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_tpiA | = 2897909 | 34 (1.180) | 5 (0.190) | 5/268 | 3.1 | 13.5% | intergenic (‑39/+55) | ygcS/ygcU | putative MFS sugar transporter; membrane protein/putative FAD‑linked oxidoreductase |
| ? | NC_000913_3_pae_tpiA | = 2897913 | 32 (1.190) | intergenic (‑43/+51) | ygcS/ygcU | putative MFS sugar transporter; membrane protein/putative FAD‑linked oxidoreductase | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4583053 | 28 (0.970) | 5 (0.180) | 5/274 | 3.2 | 16.4% | intergenic (‑89/+112) | hsdM/hsdR | DNA methyltransferase M/endonuclease R Type I restriction enzyme |
| ? | NC_000913_3_pae_tpiA | = 4583140 | 24 (0.870) | intergenic (‑176/+25) | hsdM/hsdR | DNA methyltransferase M/endonuclease R Type I restriction enzyme | |||||
| * | ? | NC_000913_3_pae_tpiA | 3563404 = | 32 (1.110) | 4 (0.150) | 4/272 | 3.6 | 11.7% | coding (1392/1506 nt) | glpD | sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding |
| ? | NC_000913_3_pae_tpiA | 3563422 = | 30 (1.100) | coding (1410/1506 nt) | glpD | sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding | |||||
| * | ? | NC_000913_3_pae_tpiA | 3305605 = | 21 (0.730) | 4 (0.150) | 4/272 | 3.6 | 15.4% | coding (213/1245 nt) | mtr | tryptophan transporter of high affinity |
| ? | NC_000913_3_pae_tpiA | 3305636 = | 24 (0.880) | coding (182/1245 nt) | mtr | tryptophan transporter of high affinity | |||||
| * | ? | NC_000913_3_pae_tpiA | = 1097101 | 22 (0.760) | 7 (0.260) | 4/270 | 3.6 | 31.3% | intergenic (+272/+464) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913_3_pae_tpiA | = 1097467 | 10 (0.370) | intergenic (+638/+98) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913_3_pae_tpiA | = 1097101 | 22 (0.760) | 7 (0.260) | 4/270 | 3.6 | 35.2% | intergenic (+272/+464) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913_3_pae_tpiA | = 1097286 | 5 (0.180) | intergenic (+457/+279) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913_3_pae_tpiA | = 1097101 | 22 (0.760) | 7 (0.260) | 4/270 | 3.6 | 24.7% | intergenic (+272/+464) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913_3_pae_tpiA | = 1097105 | 22 (0.810) | intergenic (+276/+460) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913_3_pae_tpiA | = 1062575 | NA (NA) | 4 (0.140) | 4/276 | 3.6 | 12.1% | coding (281/306 nt) | cbpM | modulator of CbpA co‑chaperone |
| ? | NC_000913_3_pae_tpiA | = 1062596 | 29 (1.040) | coding (260/306 nt) | cbpM | modulator of CbpA co‑chaperone | |||||
| * | ? | NC_000913_3_pae_tpiA | 349605 = | NA (NA) | 4 (0.150) | 4/272 | 3.6 | NA | noncoding (1/365 nt) | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences |
| ? | NC_000913_3_pae_tpiA | 349637 = | NA (NA) | noncoding (33/365 nt) | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | |||||
| * | ? | NC_000913_3_pae_tpiA | 3804946 = | 22 (0.760) | 4 (0.140) | 4/278 | 3.7 | 16.2% | coding (171/936 nt) | waaS | lipopolysaccharide rhamnose:KdoIII transferase; lipopolysaccharide core biosynthesis protein |
| ? | NC_000913_3_pae_tpiA | 3804980 = | 20 (0.710) | coding (137/936 nt) | waaS | lipopolysaccharide rhamnose:KdoIII transferase; lipopolysaccharide core biosynthesis protein | |||||