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_pgi | 4,295,320 | 0 | C | T | 27.4% | 397.4 / 156.1 | 230 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_pae_pgi | 526,792 | 0 | A | C | 27.4% | 354.5 / 189.3 | 213 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 526,796 | 0 | C | G | 27.0% | 450.2 / 180.4 | 211 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 526,800 | 0 | A | G | 24.5% | 431.4 / 124.9 | 216 | E1180E (GAA→GAG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| Marginal new junction evidence (lowest skew 10 of 281 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_pgi | = 1207805 | 95 (0.570) | 55 (0.370) | 41/228 | 7.2 | 35.0% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_pgi | = 1209602 | 121 (0.820) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_pgi | 1207790 = | 99 (0.590) | 40 (0.270) | 35/228 | 8.8 | 27.7% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_pgi | 1209619 = | 122 (0.830) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_pgi | 4162139 = | NA (NA) | 27 (0.180) | 23/238 | 13.5 | 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_pgi | 4162165 = | 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_pgi | = 4171803 | 133 (0.790) | 41 (0.250) | 23/256 | 14.6 | 21.7% | intergenic (+47/‑254) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| ? | NC_000913_3_pae_pgi | = 4213162 | 165 (1.000) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | NC_000913_3_pae_pgi | = 225281 | NA (NA) | 33 (0.200) | 22/250 | 14.7 | NA | noncoding (1511/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_pgi | = 225293 | NA (NA) | noncoding (1523/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913_3_pae_pgi | 710159 = | 196 (1.170) | 22 (0.140) | 19/238 | 15.3 | 11.5% | intergenic (+43/+41) | chiQ/fur | chitosugar‑induced verified lipoprotein/ferric iron uptake regulon transcriptional repressor; autorepressor |
| ? | NC_000913_3_pae_pgi | 710185 = | 158 (1.030) | intergenic (+69/+15) | chiQ/fur | chitosugar‑induced verified lipoprotein/ferric iron uptake regulon transcriptional repressor; autorepressor | |||||
| * | ? | NC_000913_3_pae_pgi | = 315852 | NA (NA) | 29 (0.180) | 21/252 | 15.3 | NA | coding (266/867 nt) | insF1 | IS3 transposase B |
| ? | NC_000913_3_pae_pgi | = 315875 | NA (NA) | coding (289/867 nt) | insF1 | IS3 transposase B | |||||
| * | ? | NC_000913_3_pae_pgi | 4541942 = | 138 (0.820) | 20 (0.130) | 19/242 | 15.5 | 12.3% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_pae_pgi | 4542256 = | 158 (1.010) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_pae_pgi | 4536890 = | 156 (0.930) | 18 (0.120) | 18/242 | 16.0 | 10.9% | intergenic (‑36/+29) | nanS/nanM | 9‑O‑acetyl N‑acetylneuraminic acid esterase/N‑acetylneuraminic acid mutarotase |
| ? | NC_000913_3_pae_pgi | 4536914 = | 149 (0.950) | intergenic (‑60/+5) | nanS/nanM | 9‑O‑acetyl N‑acetylneuraminic acid esterase/N‑acetylneuraminic acid mutarotase | |||||
| * | ? | NC_000913_3_pae_pgi | = 3946053 | 5 (0.030) | 27 (0.170) | 19/252 | 16.2 | 84.8% | noncoding (2350/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913_3_pae_pgi | = 3946069 | NA (NA) | noncoding (2366/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon | |||||