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 | 4,037,225 | 0 | A | . | 37.5% | 25.3 / 19.9 | 17 | intergenic (+8/‑35) | ileT/alaT | tRNA‑Ile/tRNA‑Ala |
| * | NC_000913_3_pae_pgi | 4,037,227 | 1 | . | T | 35.3% | 0.3 / 26.0 | 17 | intergenic (+10/‑33) | ileT/alaT | tRNA‑Ile/tRNA‑Ala |
| * | NC_000913_3_pae_pgi | 4,295,320 | 0 | C | T | 35.1% | 230.3 / 172.7 | 191 | 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 | 25.9% | 316.4 / 153.5 | 199 | 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 | 25.8% | 394.4 / 157.8 | 190 | 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 | 23.0% | 343.7 / 95.1 | 176 | 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 1048 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_pgi | 1207790 = | 101 (0.710) | 47 (0.380) | 39/236 | 5.8 | 34.3% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_pgi | 1209619 = | 91 (0.730) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_pgi | = 1207805 | 103 (0.720) | 39 (0.310) | 34/236 | 7.0 | 30.7% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_pgi | = 1209602 | 85 (0.680) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_pgi | = 225281 | NA (NA) | 31 (0.230) | 25/258 | 11.0 | 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 | = 3895233 | 145 (1.020) | 26 (0.200) | 22/244 | 11.4 | 16.4% | intergenic (+15/+39) | chrR/adeP | chromate reductase, Class I, flavoprotein/adenine permease, high affinity; adenine:H+ symporter |
| ? | NC_000913_3_pae_pgi | = 3895244 | 134 (1.030) | intergenic (+26/+28) | chrR/adeP | chromate reductase, Class I, flavoprotein/adenine permease, high affinity; adenine:H+ symporter | |||||
| * | ? | NC_000913_3_pae_pgi | = 382205 | NA (NA) | 30 (0.210) | 23/266 | 12.1 | NA | coding (532/906 nt) | insD1 | IS2 transposase TnpB |
| ? | NC_000913_3_pae_pgi | = 382224 | NA (NA) | coding (551/906 nt) | insD1 | IS2 transposase TnpB | |||||
| * | ? | NC_000913_3_pae_pgi | 1097172 = | NA (NA) | 23 (0.170) | 21/262 | 12.7 | 18.6% | intergenic (+343/+393) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913_3_pae_pgi | 1097188 = | 103 (0.720) | intergenic (+359/+377) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913_3_pae_pgi | 1096988 = | 155 (1.090) | 23 (0.170) | 21/262 | 12.7 | 13.2% | intergenic (+159/+577) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913_3_pae_pgi | 1097191 = | NA (NA) | intergenic (+362/+374) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913_3_pae_pgi | = 3944978 | NA (NA) | 26 (0.190) | 20/256 | 12.8 | 31.6% | noncoding (1275/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913_3_pae_pgi | = 4038811 | 59 (0.410) | noncoding (1293/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913_3_pae_pgi | 2727891 = | NA (NA) | 26 (0.190) | 20/256 | 12.8 | NA | noncoding (1294/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913_3_pae_pgi | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913_3_pae_pgi | = 227052 | 50 (0.350) | 26 (0.190) | 20/256 | 12.8 | 35.2% | noncoding (1294/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_pgi | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||