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_hsa_tpiA | 1,544,021 | 1 | . | A | 66.7% | 57.7 / 27.7 | 27 | coding (40/1389 nt) | narU | nitrate/nitrite transporter |
| * | NC_000913_3_hsa_tpiA | 1,544,022 | 1 | . | A | 33.3% | 31.2 / 38.8 | 27 | coding (39/1389 nt) | narU | nitrate/nitrite transporter |
| * | NC_000913_3_hsa_tpiA | 2,751,942 | 0 | G | C | 33.3% | 30.4 / 10.5 | 27 | A50P (GCT→CCT) | recN | recombination and repair protein |
| * | NC_000913_3_hsa_tpiA | 4,296,042 | 0 | C | T | 32.0% | 58.7 / 34.1 | 50 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 71 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_hsa_tpiA | = 3181870 | 36 (1.080) | 5 (0.160) | 5/266 | 3.7 | 12.8% | coding (538/789 nt) | ygiD | 4,5‑ DOPA‑extradiol‑dioxygenase |
| ? | NC_000913_3_hsa_tpiA | = 3181874 | 34 (1.070) | coding (534/789 nt) | ygiD | 4,5‑ DOPA‑extradiol‑dioxygenase | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2434769 = | 29 (0.870) | 4 (0.130) | 4/256 | 4.0 | 13.7% | intergenic (‑28/+55) | dedA/truA | DedA family inner membrane protein/tRNA pseudouridine(38‑40) synthase |
| ? | NC_000913_3_hsa_tpiA | 2434804 = | 24 (0.790) | intergenic (‑63/+20) | dedA/truA | DedA family inner membrane protein/tRNA pseudouridine(38‑40) synthase | |||||
| * | ? | NC_000913_3_hsa_tpiA | 1886815 = | 29 (0.870) | 4 (0.130) | 4/258 | 4.0 | 14.4% | intergenic (+5/+49) | yeaX/rnd | putative YeaWX dioxygenase beta subunit, reductase component/ribonuclease D |
| ? | NC_000913_3_hsa_tpiA | 1886858 = | 21 (0.680) | intergenic (+48/+6) | yeaX/rnd | putative YeaWX dioxygenase beta subunit, reductase component/ribonuclease D | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 1031600 | 30 (0.900) | 4 (0.130) | 4/258 | 4.0 | 12.6% | intergenic (‑182/+25) | yccA/serT | Modulator of FtsH protease, inner membrane protein/tRNA‑Ser |
| ? | NC_000913_3_hsa_tpiA | = 1031605 | 28 (0.910) | intergenic (‑187/+20) | yccA/serT | Modulator of FtsH protease, inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 3639306 | NA (NA) | 4 (0.130) | 4/266 | 4.1 | NA | noncoding (98/98 nt) | RIP261 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP261 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913_3_hsa_tpiA | 3774261 = | NA (NA) | noncoding (26/99 nt) | RIP271 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP271 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_hsa_tpiA | 3234638 = | NA (NA) | 4 (0.130) | 4/266 | 4.1 | NA | noncoding (1/86 nt) | REP233 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP233 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 3234671 = | NA (NA) | noncoding (34/86 nt) | REP233 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP233 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2945896 = | NA (NA) | 4 (0.130) | 4/266 | 4.1 | NA | noncoding (1/97 nt) | RIP206 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP206 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913_3_hsa_tpiA | 3774261 = | NA (NA) | noncoding (26/99 nt) | RIP271 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP271 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 1843605 | 43 (1.290) | 4 (0.130) | 4/262 | 4.1 | 8.9% | coding (1235/1344 nt) | gdhA | glutamate dehydrogenase, NADP‑specific |
| ? | NC_000913_3_hsa_tpiA | = 1843614 | 42 (1.350) | coding (1244/1344 nt) | gdhA | glutamate dehydrogenase, NADP‑specific | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2118475 = | NA (NA) | 4 (0.120) | 4/270 | 4.2 | 11.8% | noncoding (10/186 nt) | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 3708345 = | 30 (0.930) | noncoding (74/86 nt) | REP267 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP267 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4137880 = | 35 (1.050) | 3 (0.100) | 3/258 | 4.5 | 8.5% | intergenic (‑241/+34) | yijF/gldA | DUF1287 family protein/glycerol dehydrogenase, NAD+ dependent; 1,2‑propanediol:NAD+ oxidoreductase |
| ? | NC_000913_3_hsa_tpiA | 4137907 = | 32 (1.040) | intergenic (‑268/+7) | yijF/gldA | DUF1287 family protein/glycerol dehydrogenase, NAD+ dependent; 1,2‑propanediol:NAD+ oxidoreductase | |||||