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 | 1,544,021 | 1 | . | A | 74.8% | 317.1 / 107.4 | 111 | coding (40/1389 nt) | narU | nitrate/nitrite transporter |
| * | NC_000913_3_pae_tpiA | 4,295,976 | 0 | C | T | 23.5% | 356.9 / 118.7 | 196 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_pae_tpiA | 3,332,822 | 0 | G | A | 20.0% | 264.4 / 58.0 | 120 | intergenic (‑87/+40) | yhbE/rpmA | EamA family inner membrane putative transporter/50S ribosomal subunit protein L27 |
| * | NC_000913_3_pae_tpiA | 3,332,823 | 0 | T | C | 20.0% | 273.7 / 56.6 | 120 | intergenic (‑88/+39) | yhbE/rpmA | EamA family inner membrane putative transporter/50S ribosomal subunit protein L27 |
| Marginal new junction evidence (lowest skew 10 of 463 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_tpiA | 4542598 = | 94 (0.720) | 25 (0.210) | 25/238 | 8.8 | 20.4% | 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 = | 108 (0.890) | 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 | 4162055 = | NA (NA) | 30 (0.250) | 23/234 | 9.3 | 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 | = 4040481 | NA (NA) | 28 (0.230) | 24/244 | 9.4 | 25.5% | intergenic (+58/‑36) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon |
| ? | NC_000913_3_pae_tpiA | = 4040505 | 86 (0.660) | intergenic (+82/‑12) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4171541 | 61 (0.470) | 26 (0.210) | 22/244 | 10.1 | 30.9% | intergenic (+81/‑12) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon |
| ? | NC_000913_3_pae_tpiA | = 4212920 | NA (NA) | intergenic (+58/‑36) | rrlE/rrfE | 23S ribosomal RNA of rrnE operon/5S ribosomal RNA of rrnE operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3946688 | 138 (1.060) | 26 (0.210) | 22/244 | 10.1 | 16.5% | intergenic (+81/‑12) | rrlC/rrfC | 23S ribosomal RNA of rrnC operon/5S ribosomal RNA of rrnC operon |
| ? | NC_000913_3_pae_tpiA | = 4040481 | NA (NA) | intergenic (+58/‑36) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 228744 | 65 (0.500) | 26 (0.210) | 22/244 | 10.1 | 29.6% | intergenic (+82/‑12) | rrlH/rrfH | 23S ribosomal RNA of rrnH operon/5S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_tpiA | = 4040481 | NA (NA) | intergenic (+58/‑36) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4542606 | 84 (0.650) | 20 (0.170) | 20/238 | 10.6 | 17.8% | 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 | 106 (0.880) | 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 | 1449037 = | 124 (0.950) | 20 (0.170) | 19/230 | 10.6 | 15.2% | intergenic (+19/+39) | feaB/tynA | phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring |
| ? | NC_000913_3_pae_tpiA | 1449064 = | 112 (0.960) | intergenic (+46/+12) | feaB/tynA | phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4135948 | 255 (1.960) | 24 (0.200) | 19/238 | 11.0 | 9.4% | intergenic (+17/‑76) | katG/yijE | catalase‑peroxidase HPI, heme b‑containing/EamA‑like transporter family protein |
| ? | NC_000913_3_pae_tpiA | = 4135964 | 223 (1.850) | intergenic (+33/‑60) | katG/yijE | catalase‑peroxidase HPI, heme b‑containing/EamA‑like transporter family protein | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4099457 | 241 (1.850) | 24 (0.200) | 19/238 | 11.0 | 9.8% | coding (812/849 nt) | rhaR | transcriptional activator of rhaSR |
| ? | NC_000913_3_pae_tpiA | = 4099465 | 217 (1.800) | coding (820/849 nt) | rhaR | transcriptional activator of rhaSR | |||||