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 | 526,796 | 0 | C | G | 28.9% | 370.4 / 178.4 | 188 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 4,295,320 | 0 | C | T | 28.1% | 310.5 / 125.9 | 185 | 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 | 27.9% | 316.6 / 185.6 | 202 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 526,800 | 0 | A | G | 27.2% | 325.0 / 125.0 | 184 | E1180E (GAA→GAG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 1,311,831 | 0 | C | T | 20.4% | 333.5 / 80.2 | 157 | intergenic (+23/+17) | tonB/yciA | membrane spanning protein in TonB‑ExbB‑ExbD transport complex/acyl‑CoA esterase |
| * | NC_000913_3_pae_pgi | 1,311,830 | 0 | A | G | 20.2% | 332.1 / 79.8 | 158 | intergenic (+22/+18) | tonB/yciA | membrane spanning protein in TonB‑ExbB‑ExbD transport complex/acyl‑CoA esterase |
| Marginal new junction evidence (lowest skew 10 of 359 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_pgi | 1207790 = | 122 (0.800) | 28 (0.210) | 26/232 | 10.0 | 20.3% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_pgi | 1209619 = | 113 (0.840) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_pgi | = 4171803 | 128 (0.840) | 46 (0.310) | 28/260 | 10.9 | 25.9% | intergenic (+47/‑254) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| ? | NC_000913_3_pae_pgi | = 4213162 | 137 (0.910) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | NC_000913_3_pae_pgi | 3439574 = | 172 (1.130) | 29 (0.210) | 24/236 | 11.0 | 16.4% | intergenic (‑65/+42) | yhdN/rplQ | DUF1992 family protein/50S ribosomal subunit protein L17 |
| ? | NC_000913_3_pae_pgi | 3439604 = | 143 (1.050) | intergenic (‑95/+12) | yhdN/rplQ | DUF1992 family protein/50S ribosomal subunit protein L17 | |||||
| * | ? | NC_000913_3_pae_pgi | 59280 = | 157 (1.030) | 36 (0.270) | 23/230 | 11.0 | 21.0% | intergenic (+1/+407) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent |
| ? | NC_000913_3_pae_pgi | 59320 = | 134 (1.010) | intergenic (+41/+367) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent | |||||
| * | ? | NC_000913_3_pae_pgi | 1911650 = | 109 (0.710) | 23 (0.170) | 22/240 | 12.0 | 19.1% | intergenic (+1/+45) | yebQ/htpX | putative transporter/putative endopeptidase |
| ? | NC_000913_3_pae_pgi | 1911680 = | 96 (0.690) | intergenic (+31/+15) | yebQ/htpX | putative transporter/putative endopeptidase | |||||
| * | ? | NC_000913_3_pae_pgi | = 3946824 | 30 (0.200) | 34 (0.230) | 24/260 | 12.3 | 30.1% | intergenic (+5/‑48) | rrfC/aspT | 5S ribosomal RNA of rrnC operon/tRNA‑Asp |
| ? | NC_000913_3_pae_pgi | = 4171801 | 128 (0.850) | intergenic (+45/‑256) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding | |||||
| * | ? | NC_000913_3_pae_pgi | 3423665 = | NA (NA) | 34 (0.230) | 24/260 | 12.3 | 21.2% | intergenic (‑10/+3) | thrV/rrfD | tRNA‑Thr/5S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_pae_pgi | = 4171803 | 128 (0.840) | intergenic (+47/‑254) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding | |||||
| * | ? | NC_000913_3_pae_pgi | = 1207805 | 107 (0.700) | 22 (0.160) | 20/232 | 12.3 | 17.7% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_pgi | = 1209602 | 111 (0.830) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_pgi | 2282818 = | 196 (1.280) | 29 (0.210) | 21/240 | 12.4 | 14.0% | intergenic (+17/+122) | rplY/yejK | 50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein |
| ? | NC_000913_3_pae_pgi | 2282846 = | NA (NA) | intergenic (+45/+94) | rplY/yejK | 50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein | |||||
| * | ? | NC_000913_3_pae_pgi | 1097172 = | NA (NA) | 26 (0.170) | 23/258 | 12.6 | 24.1% | intergenic (+343/+393) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913_3_pae_pgi | 1097188 = | 84 (0.550) | intergenic (+359/+377) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||