mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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_hsa_tpiA | 1,544,021 | 1 | . | A | 72.2% | 44.1 / 14.6 | 18 | coding (40/1389 nt) | narU | nitrate/nitrite transporter |
| * | NC_000913_3_hsa_tpiA | 4,296,042 | 0 | C | T | 26.7% | 29.8 / 16.6 | 30 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_hsa_tpiA | 3,239,610 | 0 | C | G | 20.7% | 66.0 / 13.3 | 29 | intergenic (+65/‑334) | alx/sstT | putative membrane‑bound redox modulator/sodium:serine/threonine symporter |
| * | NC_000913_3_hsa_tpiA | 3,239,609 | 0 | T | G | 20.0% | 54.5 / 10.8 | 30 | intergenic (+64/‑335) | alx/sstT | putative membrane‑bound redox modulator/sodium:serine/threonine symporter |
| Marginal new junction evidence (lowest skew 10 of 53 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_hsa_tpiA | = 4557460 | 27 (1.140) | 4 (0.180) | 4/262 | 2.6 | 14.3% | coding (812/912 nt) | hypT | hypochlorite‑responsive transcription factor |
| ? | NC_000913_3_hsa_tpiA | = 4557471 | 23 (1.050) | coding (801/912 nt) | hypT | hypochlorite‑responsive transcription factor | |||||
| * | ? | NC_000913_3_hsa_tpiA | 3827430 = | 19 (0.800) | 4 (0.180) | 4/270 | 2.7 | 17.0% | intergenic (+139/+30) | recG/gltS | ATP‑dependent DNA helicase/glutamate transporter |
| ? | NC_000913_3_hsa_tpiA | 3827452 = | 21 (0.930) | intergenic (+161/+8) | recG/gltS | ATP‑dependent DNA helicase/glutamate transporter | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 3213480 | 19 (0.800) | 4 (0.180) | 4/272 | 2.7 | 16.3% | coding (434/1842 nt) | rpoD | RNA polymerase, sigma 70 (sigma D) factor |
| ? | NC_000913_3_hsa_tpiA | = 3213501 | 23 (1.010) | coding (455/1842 nt) | rpoD | RNA polymerase, sigma 70 (sigma D) factor | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 2926462 | 23 (0.970) | 4 (0.180) | 4/270 | 2.7 | 15.1% | coding (155/1365 nt) | ygdH | UPF0717 family protein |
| ? | NC_000913_3_hsa_tpiA | = 2926466 | 23 (1.020) | coding (159/1365 nt) | ygdH | UPF0717 family protein | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 2203961 | 21 (0.890) | 4 (0.180) | 4/272 | 2.7 | 16.6% | intergenic (+50/‑11) | yehI/yehK | DUF4132 domain‑containing protein/uncharacterized protein |
| ? | NC_000913_3_hsa_tpiA | = 2203988 | 20 (0.880) | coding (17/318 nt) | yehK | uncharacterized protein | |||||
| * | ? | NC_000913_3_hsa_tpiA | 3663442 = | 28 (1.180) | 6 (0.260) | 4/274 | 2.8 | 17.6% | coding (3029/3114 nt) | mdtF | anaerobic multidrug efflux transporter, ArcA‑regulated |
| ? | NC_000913_3_hsa_tpiA | 3663463 = | 29 (1.270) | coding (3050/3114 nt) | mdtF | anaerobic multidrug efflux transporter, ArcA‑regulated | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 288422 | 33 (1.390) | 4 (0.170) | 4/280 | 2.8 | 10.7% | coding (741/759 nt) | yagI | CP4‑6 prophage; putative DNA‑binding transcriptional regulator |
| ? | NC_000913_3_hsa_tpiA | = 288438 | 34 (1.450) | coding (725/759 nt) | yagI | CP4‑6 prophage; putative DNA‑binding transcriptional regulator | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 287223 | 23 (0.970) | 4 (0.170) | 4/276 | 2.8 | 14.4% | coding (435/1611 nt) | yagH | CP4‑6 prophage; putative xylosidase/arabinosidase |
| ? | NC_000913_3_hsa_tpiA | = 287234 | 25 (1.080) | coding (446/1611 nt) | yagH | CP4‑6 prophage; putative xylosidase/arabinosidase | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 3234647 | 20 (0.840) | 3 (0.140) | 3/256 | 3.0 | 10.7% | noncoding (10/86 nt) | REP233 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP233 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 4325943 = | 32 (1.500) | noncoding (160/583 nt) | REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 4414215 | 18 (0.760) | 3 (0.130) | 3/268 | 3.1 | 14.3% | intergenic (+42/‑42) | yjfC/aidB | ATP‑Grasp family ATPase/DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase |
| ? | NC_000913_3_hsa_tpiA | = 4414231 | 19 (0.850) | intergenic (+58/‑26) | yjfC/aidB | ATP‑Grasp family ATPase/DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase | |||||