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 | 4,296,042 | 0 | C | T | 28.8% | 78.8 / 40.1 | 67 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_hsa_tpiA | 2,751,942 | 0 | G | C | 22.2% | 182.5 / 20.6 | 72 | A50P (GCT→CCT) | recN | recombination and repair protein |
| Marginal new junction evidence (lowest skew 10 of 85 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_hsa_tpiA | 4218462 = | NA (NA) | 18 (0.320) | 15/260 | 4.6 | NA | noncoding (45/132 nt) | REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences |
| ? | NC_000913_3_hsa_tpiA | = 4235439 | NA (NA) | noncoding (37/77 nt) | REP313 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP313 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 4542672 | 73 (1.130) | 15 (0.250) | 15/278 | 5.1 | 18.1% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_hsa_tpiA | = 4542968 | 67 (1.100) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 3548549 | 54 (0.830) | 12 (0.220) +23 bp |
10/250 | 6.1 | 20.5% | coding (1522/2085 nt) | malQ | 4‑alpha‑glucanotransferase (amylomaltase) |
| ? | NC_000913_3_hsa_tpiA | 3548573 = | 56 (0.860) | coding (1498/2085 nt) | malQ | 4‑alpha‑glucanotransferase (amylomaltase) | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4542664 = | 75 (1.160) | 10 (0.160) | 10/278 | 6.9 | 12.7% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_hsa_tpiA | 4542978 = | 67 (1.100) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 3139656 | NA (NA) | 14 (0.220) +C |
11/294 | 6.9 | NA | noncoding (36/83 nt) | REP221 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP221 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 4218462 = | NA (NA) | noncoding (45/132 nt) | REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2464211 = | 73 (1.130) | 6 (0.100) | 6/270 | 8.6 | 8.4% | intergenic (+141/+41) | yfdF/mlaA | uncharacterized protein/ABC transporter maintaining OM lipid asymmetry, OM lipoprotein component |
| ? | NC_000913_3_hsa_tpiA | 2464243 = | 65 (1.100) | intergenic (+173/+9) | yfdF/mlaA | uncharacterized protein/ABC transporter maintaining OM lipid asymmetry, OM lipoprotein component | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4218462 = | NA (NA) | 8 (0.120) | 7/296 | 8.8 | 16.7% | noncoding (45/132 nt) | REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 4326130 = | 40 (0.620) | noncoding (347/583 nt) | REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 3786886 = | 86 (1.330) | 6 (0.100) | 6/276 | 8.8 | 7.1% | coding (49/1260 nt) | envC | activator of AmiB,C murein hydrolases, septal ring factor |
| ? | NC_000913_3_hsa_tpiA | 3786913 = | 77 (1.280) | coding (76/1260 nt) | envC | activator of AmiB,C murein hydrolases, septal ring factor | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2177447 = | NA (NA) | 7 (0.110) | 6/294 | 9.3 | NA | noncoding (40/77 nt) | REP151 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP151 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 4218463 = | NA (NA) | noncoding (46/132 nt) | REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 4189586 | 76 (1.170) | 5 (0.080) | 5/276 | 9.4 | 6.5% | intergenic (+31/‑182) | rpoC/yjaZ | RNA polymerase, beta prime subunit/stationary phase growth adaptation protein |
| ? | NC_000913_3_hsa_tpiA | = 4189590 | 73 (1.210) | intergenic (+35/‑178) | rpoC/yjaZ | RNA polymerase, beta prime subunit/stationary phase growth adaptation protein | |||||