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_pae_tpiA | 4,295,976 | 0 | C | T | 36.4% | 29.6 / 38.1 | 44 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_pae_tpiA | 1,446,357 | 1 | . | T | 20.0% | 53.9 / 11.9 | 20 | intergenic (+151/+21) | ydbL/feaR | DUF1318 family protein/transcriptional activator for tynA and feaB |
| Marginal new junction evidence (lowest skew 10 of 129 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_tpiA | 1758437 = | 16 (0.570) | 5 (0.180) | 5/272 | 3.0 | 23.6% | coding (289/1005 nt) | ldtE | murein L,D‑transpeptidase |
| ? | NC_000913_3_pae_tpiA | 1758456 = | 17 (0.620) | coding (270/1005 nt) | ldtE | murein L,D‑transpeptidase | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3829490 | 35 (1.240) | 5 (0.180) | 5/274 | 3.1 | 13.0% | coding (546/1392 nt) | xanP | xanthine permease |
| ? | NC_000913_3_pae_tpiA | = 3829502 | 33 (1.200) | coding (558/1392 nt) | xanP | xanthine permease | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4542606 | 16 (0.570) | 4 (0.150) | 4/264 | 3.3 | 14.3% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_pae_tpiA | = 4542902 | 33 (1.250) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3777134 | NA (NA) | 6 (0.230) | 4/264 | 3.3 | NA | intergenic (+107/‑265) | yibL/lldP | ribosome‑associated DUF2810 family protein/L‑lactate permease |
| ? | NC_000913_3_pae_tpiA | = 3777146 | NA (NA) | intergenic (+119/‑253) | yibL/lldP | ribosome‑associated DUF2810 family protein/L‑lactate permease | |||||
| * | ? | NC_000913_3_pae_tpiA | 1570533 = | 34 (1.200) | 4 (0.150) | 4/262 | 3.3 | 10.9% | intergenic (‑44/+112) | gadC/gadB | glutamate:gamma‑aminobutyric acid antiporter/glutamate decarboxylase B, PLP‑dependent |
| ? | NC_000913_3_pae_tpiA | 1570558 = | 34 (1.300) | intergenic (‑69/+87) | gadC/gadB | glutamate:gamma‑aminobutyric acid antiporter/glutamate decarboxylase B, PLP‑dependent | |||||
| * | ? | NC_000913_3_pae_tpiA | = 1338524 | 24 (0.850) | 4 (0.160) | 4/256 | 3.3 | 14.9% | intergenic (+18/+46) | acnA/ribA | aconitate hydratase 1; aconitase A/GTP cyclohydrolase II |
| ? | NC_000913_3_pae_tpiA | = 1338535 | 24 (0.940) | intergenic (+29/+35) | acnA/ribA | aconitate hydratase 1; aconitase A/GTP cyclohydrolase II | |||||
| * | ? | NC_000913_3_pae_tpiA | 3780407 = | 23 (0.810) | 4 (0.150) | 4/270 | 3.4 | 15.7% | coding (581/1191 nt) | lldD | L‑lactate dehydrogenase, FMN‑linked |
| ? | NC_000913_3_pae_tpiA | 3780433 = | 21 (0.780) | coding (607/1191 nt) | lldD | L‑lactate dehydrogenase, FMN‑linked | |||||
| * | ? | NC_000913_3_pae_tpiA | 3082756 = | 30 (1.060) | 4 (0.150) | 4/268 | 3.4 | 12.6% | noncoding (67/147 nt) | REP214 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP214 (repetitive extragenic palindromic) element; contains 3 REP sequences |
| ? | NC_000913_3_pae_tpiA | 3082788 = | 27 (1.010) | noncoding (99/147 nt) | REP214 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP214 (repetitive extragenic palindromic) element; contains 3 REP sequences | |||||
| * | ? | NC_000913_3_pae_tpiA | 2549484 = | NA (NA) | 4 (0.150) | 4/268 | 3.4 | NA | noncoding (19/98 nt) | RIP176 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP176 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913_3_pae_tpiA | 3598404 = | NA (NA) | noncoding (8/99 nt) | RIP259 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP259 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_pae_tpiA | = 2267859 | 27 (0.960) | 4 (0.150) | 4/268 | 3.4 | 13.4% | coding (31/987 nt) | yeiR | Zn‑stimulated GTPase involved in zinc homeostasis; mutants are cadmium and EDTA sensitive; Zn(2+) binding protein |
| ? | NC_000913_3_pae_tpiA | = 2267869 | 26 (0.970) | coding (41/987 nt) | yeiR | Zn‑stimulated GTPase involved in zinc homeostasis; mutants are cadmium and EDTA sensitive; Zn(2+) binding protein | |||||