mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
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 | 4,296,268 | 0 | T | C | 23.8% | 178.8 / 54.6 | 109 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,781,140 | 0 | A | G | 20.3% | 309.7 / 22.0 | 126 | intergenic (+123/‑75) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| Marginal new junction evidence (lowest skew 10 of 62 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1096961 = | 180 (0.810) | 81 (0.570) | 4/288 | 11.7 | 41.7% | intergenic (+132/+604) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913 | = 1097503 | 111 (0.780) | intergenic (+674/+62) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913 | 3927418 = | 237 (1.060) | 8 (0.040) | 8/424 | 12.3 | 3.5% | coding (264/993 nt) | asnA | asparagine synthetase A |
| ? | NC_000913 | 3927457 = | 214 (1.010) | coding (303/993 nt) | asnA | asparagine synthetase A | |||||
| * | ? | NC_000913 | = 2197774 | 179 (0.800) | 9 (0.040) | 7/426 | 12.9 | 4.8% | pseudogene (1301/2847 nt) | yehH | DUF4132 family pseudogene; defective yehI paralog; molybdate metabolism regulator, first fragment; molybdate metabolism regulator, second fragment 2; yehI' molR mutations have phenotypes and the N‑terminal molR fragment of yehI' may be expressed and may have retained or evolved MolR function |
| ? | NC_000913 | = 2197784 | 185 (0.870) | pseudogene (1311/2847 nt) | yehH | DUF4132 family pseudogene; defective yehI paralog; molybdate metabolism regulator, first fragment; molybdate metabolism regulator, second fragment 2; yehI' molR mutations have phenotypes and the N‑terminal molR fragment of yehI' may be expressed and may have retained or evolved MolR function | |||||
| * | ? | NC_000913 | 3776001 = | 224 (1.000) | 5 (0.020) | 5/430 | 14.1 | 2.3% | coding (430/588 nt) | mtlR | mannitol operon repressor |
| ? | NC_000913 | 3776026 = | 210 (0.980) | coding (455/588 nt) | mtlR | mannitol operon repressor | |||||
| * | ? | NC_000913 | 2834089 = | 205 (0.920) | 5 (0.020) | 5/434 | 14.1 | 2.5% | coding (178/1134 nt) | norW | NADH:flavorubredoxin oxidoreductase |
| ? | NC_000913 | 2834107 = | 187 (0.860) | coding (196/1134 nt) | norW | NADH:flavorubredoxin oxidoreductase | |||||
| * | ? | NC_000913 | 1231441 = | 174 (0.780) | 5 (0.020) | 5/434 | 14.1 | 3.0% | coding (256/1269 nt) | umuC | translesion error‑prone DNA polymerase V subunit; DNA polymerase activity |
| ? | NC_000913 | 1231473 = | 155 (0.720) | coding (288/1269 nt) | umuC | translesion error‑prone DNA polymerase V subunit; DNA polymerase activity | |||||
| * | ? | NC_000913 | = 1090395 | 242 (1.080) | 5 (0.020) | 5/432 | 14.1 | 2.1% | coding (1895/2424 nt) | pgaA | biofilm adhesin polysaccharide PGA secretin; OM porin; poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export protein |
| ? | NC_000913 | = 1090405 | 235 (1.090) | coding (1885/2424 nt) | pgaA | biofilm adhesin polysaccharide PGA secretin; OM porin; poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export protein | |||||
| * | ? | NC_000913 | 4094338 = | NA (NA) | 15 (0.070) +23 bp |
4/402 | 14.2 | NA | noncoding (23/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | = 4094682 | NA (NA) | noncoding (367/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | NC_000913 | 4295832 = | NA (NA) | 11 (0.060) | 3/370 | 14.3 | NA | intergenic (+38/+604) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| ? | NC_000913 | = 4296394 | NA (NA) | noncoding (560/600 nt) | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | |||||
| * | ? | NC_000913 | = 3849038 | 259 (1.160) | 4 (0.020) | 4/424 | 14.6 | 1.8% | coding (1099/1503 nt) | uhpB | sensory histidine kinase in two‑component regulatory sytem with UhpA |
| ? | NC_000913 | = 3849588 | 190 (0.900) | coding (549/1503 nt) | uhpB | sensory histidine kinase in two‑component regulatory sytem with UhpA | |||||