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 | 28.1% | 179.5 / 81.9 | 114 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_pae_tpiA | 1,703,251 | 0 | A | T | 26.1% | 91.3 / 35.4 | 47 | intergenic (+17/+17) | add/ydgJ | adenosine deaminase/putative oxidoreductase |
| * | NC_000913_3_pae_tpiA | 1,703,252 | 0 | A | T | 25.5% | 90.0 / 36.4 | 47 | intergenic (+18/+16) | add/ydgJ | adenosine deaminase/putative oxidoreductase |
| * | NC_000913_3_pae_tpiA | 1,449,050 | 0 | T | A | 21.2% | 149.6 / 43.6 | 66 | intergenic (+32/+26) | feaB/tynA | phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring |
| * | NC_000913_3_pae_tpiA | 3,959,515 | 0 | T | A | 20.9% | 88.5 / 25.8 | 43 | intergenic (+70/+17) | ilvC/ppiC | ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C) |
| Marginal new junction evidence (lowest skew 10 of 426 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_tpiA | = 4542606 | 42 (0.660) | 18 (0.300) | 17/240 | 3.9 | 28.1% | 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 | 53 (0.900) | 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 | 4542598 = | 45 (0.710) | 20 (0.340) | 17/240 | 3.9 | 29.4% | 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 = | 54 (0.910) | 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 | = 225281 | NA (NA) | 20 (0.330) | 17/248 | 4.1 | NA | noncoding (1511/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_tpiA | = 225293 | NA (NA) | noncoding (1523/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 1449049 | 55 (0.860) | 16 (0.280) | 14/232 | 4.5 | 24.9% | intergenic (+31/+27) | feaB/tynA | phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring |
| ? | NC_000913_3_pae_tpiA | = 1449050 | 47 (0.820) | intergenic (+32/+26) | feaB/tynA | phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring | |||||
| * | ? | NC_000913_3_pae_tpiA | 4162055 = | NA (NA) | 15 (0.260) | 13/236 | 4.9 | NA | intergenic (+9/+31) | yijD/trmA | DUF1422 family inner membrane protein/tRNA m(5)U54 methyltransferase, SAM‑dependent; tmRNA m(5)U341 methyltransferase |
| ? | NC_000913_3_pae_tpiA | 4162081 = | NA (NA) | intergenic (+35/+5) | yijD/trmA | DUF1422 family inner membrane protein/tRNA m(5)U54 methyltransferase, SAM‑dependent; tmRNA m(5)U341 methyltransferase | |||||
| * | ? | NC_000913_3_pae_tpiA | 1672789 = | 68 (1.070) | 16 (0.270) | 13/238 | 4.9 | 22.0% | intergenic (+8/+31) | ydgD/mdtI | putative peptidase/multidrug efflux system transporter |
| ? | NC_000913_3_pae_tpiA | 1672815 = | 51 (0.870) | intergenic (+34/+5) | ydgD/mdtI | putative peptidase/multidrug efflux system transporter | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3648127 | 54 (0.850) | 11 (0.190) | 11/236 | 5.5 | 19.4% | noncoding (65/84 nt) | agrA | inactive antisense sRNA |
| ? | NC_000913_3_pae_tpiA | = 3648363 | 42 (0.720) | noncoding (70/84 nt) | agrB | antisense sRNA antitoxin for the DinQ toxin | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4040683 | 107 (1.680) | 21 (0.340) | 12/254 | 5.6 | 20.5% | intergenic (+47/+223) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B |
| ? | NC_000913_3_pae_tpiA | = 4213078 | 58 (0.930) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | NC_000913_3_pae_tpiA | 2729443 = | 33 (0.520) | 13 (0.220) | 11/238 | 5.6 | 27.5% | noncoding (2/76 nt) | gltW | tRNA‑Glu |
| ? | NC_000913_3_pae_tpiA | = 4168247 | 38 (0.650) | intergenic (+131/‑41) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||
| * | ? | NC_000913_3_pae_tpiA | 2729443 = | 33 (0.520) | 12 (0.200) | 11/238 | 5.6 | 29.5% | noncoding (2/76 nt) | gltW | tRNA‑Glu |
| ? | NC_000913_3_pae_tpiA | 2729485 = | 27 (0.460) | intergenic (‑41/+131) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon | |||||