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_bme_pgi | 526,796 | 0 | C | G | 28.2% | 464.7 / 212.3 | 227 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_bme_pgi | 526,792 | 0 | A | C | 27.7% | 402.5 / 206.5 | 235 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_bme_pgi | 4,296,061 | 0 | C | T | 26.8% | 576.8 / 231.2 | 339 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_bme_pgi | 526,800 | 0 | A | G | 25.9% | 409.9 / 148.3 | 221 | 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 249 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_bme_pgi | 390230 = | 111 (0.540) | 92 (0.450) | 64/248 | 6.3 | 45.3% | intergenic (‑503/‑21) | hemB/yaiT | 5‑aminolevulinate dehydratase (porphobilinogen synthase)/pseudogene, autotransporter family;putative structure; Not classified; interrupted by IS3; putative flagellin structural protein |
| ? | NC_000913_3_bme_pgi | = 1469240 | NA (NA) | intergenic (‑91/‑1) | insC1/ydbA | IS2 repressor TnpA/pseudogene, autotransporter homolog; interrupted by IS2 and IS30 | |||||
| * | ? | NC_000913_3_bme_pgi | = 382588 | NA (NA) | 69 (0.340) | 51/244 | 8.8 | 38.9% | intergenic (+9/+3) | insD1/yaiX | IS2 transposase TnpB/pseudogene, interrupted by IS2A; hexapeptide transferase superfamily; putative transferase |
| ? | NC_000913_3_bme_pgi | = 390236 | 110 (0.540) | intergenic (‑509/‑15) | hemB/yaiT | 5‑aminolevulinate dehydratase (porphobilinogen synthase)/pseudogene, autotransporter family;putative structure; Not classified; interrupted by IS3; putative flagellin structural protein | |||||
| * | ? | NC_000913_3_bme_pgi | = 4542691 | 149 (0.730) | 41 (0.220) | 36/230 | 12.2 | 21.6% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_bme_pgi | = 4542987 | 160 (0.840) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_bme_pgi | 4542683 = | 148 (0.720) | 42 (0.220) | 35/230 | 12.5 | 22.0% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_bme_pgi | 4542997 = | 160 (0.840) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_bme_pgi | 1207790 = | 162 (0.790) | 34 (0.190) | 31/216 | 12.9 | 18.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_bme_pgi | 1209619 = | 159 (0.890) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_bme_pgi | 59280 = | 235 (1.150) | 41 (0.230) | 29/214 | 13.5 | 17.4% | intergenic (+1/+407) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent |
| ? | NC_000913_3_bme_pgi | 59320 = | 186 (1.050) | intergenic (+41/+367) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent | |||||
| * | ? | NC_000913_3_bme_pgi | 3423376 = | 212 (1.040) | 45 (0.220) | 30/244 | 15.3 | 18.2% | intergenic (+182/+47) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_bme_pgi | = 4213162 | 197 (0.980) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | NC_000913_3_bme_pgi | 3423376 = | 212 (1.040) | 37 (0.180) | 30/244 | 15.3 | 24.0% | intergenic (+182/+47) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_bme_pgi | = 3946822 | 26 (0.130) | intergenic (+3/‑50) | rrfC/aspT | 5S ribosomal RNA of rrnC operon/tRNA‑Asp | |||||
| * | ? | NC_000913_3_bme_pgi | 3423376 = | 212 (1.040) | 37 (0.180) | 30/244 | 15.3 | 15.1% | intergenic (+182/+47) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_bme_pgi | 3423665 = | NA (NA) | intergenic (‑10/+3) | thrV/rrfD | tRNA‑Thr/5S ribosomal RNA of rrnD operon | |||||
| * | ? | NC_000913_3_bme_pgi | = 1207805 | 162 (0.790) | 28 (0.160) | 24/216 | 15.7 | 15.8% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_bme_pgi | = 1209602 | 157 (0.880) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||