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 | 59,109 | 0 | G | A | 31.0% | 30.8 / 19.8 | 29 | pseudogene (58/228 nt) | yabP | pseudogene, pentapeptide repeats‑containing |
| * | NC_000913_3_hsa_tpiA | 4,296,042 | 0 | C | T | 28.7% | 120.2 / 60.7 | 95 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 79 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_hsa_tpiA | = 1207805 | 66 (1.000) | 14 (0.240) | 13/246 | 4.8 | 19.3% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_hsa_tpiA | = 1209602 | 59 (1.020) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2304471 = | 85 (1.290) | 10 (0.160) | 10/264 | 6.3 | 13.7% | noncoding (55/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 2304955 = | 45 (0.720) | noncoding (539/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 59280 = | 74 (1.130) | 9 (0.160) | 8/244 | 6.6 | 12.3% | intergenic (+1/+407) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent |
| ? | NC_000913_3_hsa_tpiA | 59320 = | 63 (1.090) | intergenic (+41/+367) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2304923 = | 33 (0.500) | 9 (0.140) | 9/264 | 6.7 | 19.1% | noncoding (507/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 2304955 = | 45 (0.720) | noncoding (539/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2304817 = | NA (NA) | 9 (0.140) | 9/264 | 6.7 | 17.4% | noncoding (401/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 2304948 = | 45 (0.680) | noncoding (532/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2304697 = | 41 (0.620) | 9 (0.140) | 9/264 | 6.7 | 17.7% | noncoding (281/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 2304955 = | 45 (0.720) | noncoding (539/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 1207790 = | 76 (1.160) | 7 (0.120) | 7/246 | 7.1 | 10.0% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_hsa_tpiA | 1209619 = | 59 (1.020) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 715221 | 76 (1.160) | 9 (0.150) | 7/256 | 7.4 | 11.2% | intergenic (+23/‑191) | pgm/ybfP | phosphoglucomutase/lipoprotein |
| ? | NC_000913_3_hsa_tpiA | = 715231 | 72 (1.190) | intergenic (+33/‑181) | pgm/ybfP | phosphoglucomutase/lipoprotein | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4542664 = | 36 (0.550) | 9 (0.150) | 7/260 | 7.5 | 14.7% | 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 = | 71 (1.160) | 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 | = 2304879 | 36 (0.550) | 7 (0.110) | 7/264 | 7.6 | 17.9% | noncoding (463/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913_3_hsa_tpiA | = 2304895 | 30 (0.480) | noncoding (479/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||