mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
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 | 4,296,060 | 0 | C | T | 40.0% | 14.0 / 41.5 | 46 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 14 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 37 (0.990) | 4 (0.120) | 4/252 | 4.3 | 11.3% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 30 (0.910) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 42 (1.130) | 4 (0.120) | 3/252 | 4.8 | 10.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 31 (0.940) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 3567519 = | 47 (1.260) | 3 (0.080) | 3/272 | 5.1 | 6.2% | coding (515/1434 nt) | glgA | glycogen synthase |
| ? | NC_000913 | 3567558 = | 46 (1.290) | coding (476/1434 nt) | glgA | glycogen synthase | |||||
| * | ? | NC_000913 | = 2291207 | 45 (1.210) | 3 (0.080) | 3/270 | 5.1 | 6.9% | noncoding (55/199 nt) | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site |
| ? | NC_000913 | = 2549483 | 38 (1.080) | noncoding (18/98 nt) | RIP176 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP176 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 2291207 | 45 (1.210) | 3 (0.080) | 3/270 | 5.1 | 7.8% | noncoding (55/199 nt) | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site |
| ? | NC_000913 | 2538615 = | 28 (0.790) | noncoding (81/98 nt) | RIP174 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP174 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 2291207 | 45 (1.210) | 3 (0.080) | 3/270 | 5.1 | 6.6% | noncoding (55/199 nt) | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site |
| ? | NC_000913 | = 2291218 | 42 (1.190) | noncoding (66/199 nt) | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 610141 | 47 (1.260) | 3 (0.080) | 3/270 | 5.1 | 6.4% | noncoding (25/98 nt) | RIP54 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP54 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | = 2291200 | 43 (1.220) | noncoding (48/199 nt) | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 3011271 | 33 (0.890) | 3 (0.080) | 3/276 | 5.2 | 8.8% | coding (1244/1386 nt) | hyuA | D‑stereospecific phenylhydantoinase |
| ? | NC_000913 | = 3011293 | 30 (0.830) | coding (1266/1386 nt) | hyuA | D‑stereospecific phenylhydantoinase | |||||
| * | ? | NC_000913 | 315229 = | NA (NA) | 3 (0.080) +TCA |
3/278 | 5.2 | 6.8% | noncoding (1/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 572471 | 42 (1.130) | coding (6/456 nt) | ybcN | DLP12 prophage; uncharacterized protein | |||||
| * | ? | NC_000913 | = 4171803 | 36 (0.970) | 6 (0.160) | 3/280 | 5.3 | 13.0% | intergenic (+47/‑254) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| ? | NC_000913 | = 4213162 | 45 (1.230) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||