mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 27.4% | 162.9 / 58.1 | 95 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_pae_tpiA | 1,797,391 | 0 | A | C | 21.4% | 104.6 / 38.2 | 56 | L185R (CTG→CGG) | pheT | phenylalanine tRNA synthetase, beta subunit |
| * | NC_000913_3_pae_tpiA | 1,797,388 | 0 | G | T | 20.7% | 138.8 / 31.1 | 58 | P186Q (CCG→CAG) | pheT | phenylalanine tRNA synthetase, beta subunit |
| Marginal new junction evidence (lowest skew 10 of 241 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_tpiA | = 1207805 | 58 (0.990) | 16 (0.310) | 16/232 | 3.4 | 25.0% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_tpiA | = 1209602 | 45 (0.870) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4542606 | 38 (0.650) | 14 (0.260) | 13/246 | 4.5 | 25.4% | 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 | 47 (0.860) | 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 | 1207790 = | 53 (0.900) | 12 (0.230) | 12/232 | 4.5 | 20.6% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_tpiA | 1209619 = | 46 (0.890) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3895233 | 55 (0.940) | 11 (0.210) | 11/240 | 5.0 | 18.6% | intergenic (+15/+39) | chrR/adeP | chromate reductase, Class I, flavoprotein/adenine permease, high affinity; adenine:H+ symporter |
| ? | NC_000913_3_pae_tpiA | = 3895244 | 46 (0.860) | intergenic (+26/+28) | chrR/adeP | chromate reductase, Class I, flavoprotein/adenine permease, high affinity; adenine:H+ symporter | |||||
| * | ? | NC_000913_3_pae_tpiA | 4542598 = | 44 (0.750) | 12 (0.220) | 11/246 | 5.1 | 21.2% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_pae_tpiA | 4542912 = | 48 (0.880) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_pae_tpiA | 4040640 = | 141 (2.400) | 14 (0.270) | 10/236 | 5.2 | 10.0% | intergenic (+4/+266) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B |
| ? | NC_000913_3_pae_tpiA | 4040684 = | NA (NA) | intergenic (+48/+222) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4376195 | 45 (0.770) | 10 (0.180) | 10/252 | 5.6 | 19.2% | intergenic (+14/‑38) | efp/ecnA | polyproline‑specific translation elongation factor EF‑P/entericidin A membrane lipoprotein, antidote entericidin B |
| ? | NC_000913_3_pae_tpiA | = 4376207 | 41 (0.730) | intergenic (+26/‑26) | efp/ecnA | polyproline‑specific translation elongation factor EF‑P/entericidin A membrane lipoprotein, antidote entericidin B | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3781125 | 53 (0.900) | 10 (0.180) | 10/254 | 5.7 | 16.4% | intergenic (+108/‑90) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| ? | NC_000913_3_pae_tpiA | = 3781138 | 51 (0.900) | intergenic (+121/‑77) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent | |||||
| * | ? | NC_000913_3_pae_tpiA | = 225998 | NA (NA) | 11 (0.190) | 10/256 | 5.7 | NA | noncoding (240/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_tpiA | = 226015 | NA (NA) | noncoding (257/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4353085 | 54 (0.920) | 8 (0.150) | 8/234 | 6.0 | 13.7% | intergenic (+88/+31) | ghoT/lysU | toxin of GhoTS toxin‑antitoxin pair; membrane‑lytic protein; stimulator of persister cell formation/lysine tRNA synthetase, inducible |
| ? | NC_000913_3_pae_tpiA | = 4353089 | 53 (1.020) | intergenic (+92/+27) | ghoT/lysU | toxin of GhoTS toxin‑antitoxin pair; membrane‑lytic protein; stimulator of persister cell formation/lysine tRNA synthetase, inducible | |||||