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 | 32.5% | 81.3 / 64.8 | 78 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,548,565 | 0 | C | A | 21.8% | 119.6 / 12.2 | 55 | P502P (CCG→CCT) | malQ | 4‑alpha‑glucanotransferase (amylomaltase) |
| Marginal new junction evidence (lowest skew 10 of 40 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 56 (0.560) | 30 (0.340) | 27/248 | 3.7 | 38.3% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 47 (0.530) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 3269728 | 121 (1.200) | 6 (0.060) | 6/266 | 10.8 | 4.9% | noncoding (7/98 nt) | RIP237 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP237 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | = 3269739 | 120 (1.250) | noncoding (18/98 nt) | RIP237 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP237 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 758502 = | 107 (1.060) | 6 (0.060) | 6/266 | 10.8 | 5.8% | noncoding (94/118 nt) | RIP67 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP67 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site |
| ? | NC_000913 | 758527 = | 95 (0.990) | intergenic (+122/‑179) | sdhB/sucA | succinate dehydrogenase, FeS subunit/2‑oxoglutarate decarboxylase, thiamine triphosphate‑binding | |||||
| * | ? | NC_000913 | = 381669 | NA (NA) | 6 (0.060) | 6/266 | 10.8 | NA | noncoding (410/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381695 | NA (NA) | noncoding (436/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 2472970 | 101 (1.000) | 5 (0.050) | 5/266 | 11.4 | 5.2% | pseudogene (616/708 nt) | oweS | pseudogene, CPS‑53 (KpLE1) prophage; bacteriophage replication protein O family;Phage or Prophage Related |
| ? | NC_000913 | = 2473031 | 88 (0.920) | pseudogene (555/708 nt) | oweS | pseudogene, CPS‑53 (KpLE1) prophage; bacteriophage replication protein O family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 101111 = | 94 (0.930) | 5 (0.050) | 5/268 | 11.5 | 5.5% | coding (347/1476 nt) | murC | UDP‑N‑acetylmuramate:L‑alanine ligase |
| ? | NC_000913 | 101148 = | 83 (0.860) | coding (384/1476 nt) | murC | UDP‑N‑acetylmuramate:L‑alanine ligase | |||||
| * | ? | NC_000913 | 3714505 = | 93 (0.920) | 4 (0.040) | 4/262 | 11.9 | 4.4% | coding (1890/2334 nt) | bisC | biotin sulfoxide reductase |
| ? | NC_000913 | 3714555 = | 87 (0.920) | coding (1840/2334 nt) | bisC | biotin sulfoxide reductase | |||||
| * | ? | NC_000913 | 2729475 = | 88 (0.870) | 4 (0.040) | 4/260 | 11.9 | 5.9% | intergenic (‑31/+141) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon |
| ? | NC_000913 | = 4168363 | 46 (0.490) | intergenic (+163/‑9) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||
| * | ? | NC_000913 | 2729443 = | 71 (0.710) | 4 (0.040) | 4/260 | 11.9 | 5.2% | noncoding (2/76 nt) | gltW | tRNA‑Glu |
| ? | NC_000913 | 2729485 = | 79 (0.850) | intergenic (‑41/+131) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 288413 | 90 (0.890) | 4 (0.040) | 4/262 | 11.9 | 4.3% | coding (750/759 nt) | yagI | CP4‑6 prophage; putative DNA‑binding transcriptional regulator |
| ? | NC_000913 | = 288439 | 95 (1.010) | coding (724/759 nt) | yagI | CP4‑6 prophage; putative DNA‑binding transcriptional regulator | |||||