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 | 73.0% | 94.3 / 30.5 | 37 | coding (40/1389 nt) | narU | nitrate/nitrite transporter |
| * | NC_000913_3_hsa_tpiA | 4,296,042 | 0 | C | T | 35.6% | 71.4 / 71.8 | 88 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 23 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_hsa_tpiA | 182317 = | 65 (1.370) | 7 (0.160) | 7/258 | 4.8 | 10.4% | intergenic (+9/‑146) | degP/cdaR | serine endoprotease (protease Do), membrane‑associated/carbohydrate diacid regulon transcriptional regulator; autoregulator |
| ? | NC_000913_3_hsa_tpiA | 182345 = | 60 (1.360) | intergenic (+37/‑118) | degP/cdaR | serine endoprotease (protease Do), membrane‑associated/carbohydrate diacid regulon transcriptional regulator; autoregulator | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4542664 = | 40 (0.840) | 6 (0.140) | 6/260 | 5.3 | 13.3% | 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 = | 41 (0.920) | 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 | = 2525906 | 42 (0.880) | 8 (0.180) | 5/258 | 5.7 | 16.5% | intergenic (+15/+24) | yfeN/yfeR | putative outer membrane protein/transcriptional regulator of yefH |
| ? | NC_000913_3_hsa_tpiA | = 2525909 | 42 (0.950) | intergenic (+18/+21) | yfeN/yfeR | putative outer membrane protein/transcriptional regulator of yefH | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 2455060 | 48 (1.010) | 5 (0.110) | 5/260 | 5.7 | 10.1% | intergenic (‑59/+23) | yfcU/yfcV | pseudogene, FimD fimbrial export usher family;putative membrane; Not classified; putative outer membrane protein/putative fimbrial‑like adhesin protein |
| ? | NC_000913_3_hsa_tpiA | = 2455066 | 44 (0.990) | intergenic (‑65/+17) | yfcU/yfcV | pseudogene, FimD fimbrial export usher family;putative membrane; Not classified; putative outer membrane protein/putative fimbrial‑like adhesin protein | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 1429018 | 56 (1.180) | 5 (0.110) | 5/262 | 5.8 | 8.5% | intergenic (+34/‑31) | lomR/stfR | pseudogene, Rac prophage lom homolog;Phage or Prophage Related; interrupted by IS5 and N‑ter deletion/Rac prophage; putative tail fiber protein |
| ? | NC_000913_3_hsa_tpiA | = 1429024 | 55 (1.230) | intergenic (+40/‑25) | lomR/stfR | pseudogene, Rac prophage lom homolog;Phage or Prophage Related; interrupted by IS5 and N‑ter deletion/Rac prophage; putative tail fiber protein | |||||
| * | ? | NC_000913_3_hsa_tpiA | 349816 = | 52 (1.100) | 5 (0.110) | 5/264 | 5.8 | 8.8% | noncoding (212/365 nt) | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 349891 = | 54 (1.200) | noncoding (287/365 nt) | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 349791 = | 59 (1.240) | 5 (0.110) | 5/264 | 5.8 | 8.6% | noncoding (187/365 nt) | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 349823 = | 50 (1.110) | noncoding (219/365 nt) | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 711985 = | 44 (0.930) | 5 (0.110) | 5/272 | 6.0 | 9.8% | intergenic (‑87/+53) | ybfE/ybfF | LexA‑regulated protein, CopB family/acyl‑CoA esterase |
| ? | NC_000913_3_hsa_tpiA | 712021 = | 49 (1.060) | intergenic (‑123/+17) | ybfE/ybfF | LexA‑regulated protein, CopB family/acyl‑CoA esterase | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 4383639 | 65 (1.370) | 4 (0.090) | 4/260 | 6.3 | 6.3% | intergenic (+37/‑182) | epmA/yjeM | Elongation Factor P Lys34 lysyltransferase/putative transporter |
| ? | NC_000913_3_hsa_tpiA | = 4383646 | 59 (1.330) | intergenic (+44/‑175) | epmA/yjeM | Elongation Factor P Lys34 lysyltransferase/putative transporter | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 3022689 | 49 (1.030) | 4 (0.090) | 4/270 | 6.4 | 8.0% | coding (1374/2871 nt) | xdhD | putative hypoxanthine oxidase, molybdopterin‑binding/Fe‑S binding |
| ? | NC_000913_3_hsa_tpiA | = 3022708 | 45 (0.980) | coding (1393/2871 nt) | xdhD | putative hypoxanthine oxidase, molybdopterin‑binding/Fe‑S binding | |||||