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 | 4,037,496 | 0 | A | T | 45.5% | 17.1 / 46.8 | 44 | intergenic (+161/‑23) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon |
| * | NC_000913 | 4,296,060 | 0 | C | T | 29.0% | 81.1 / 36.0 | 70 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 29 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1104930 | 76 (1.240) | 7 (0.120) | 6/266 | 7.1 | 8.7% | intergenic (+28/‑31) | csgA/csgC | curlin subunit, amyloid curli fibers, cryptic/curli assembly protein |
| ? | NC_000913 | = 1104934 | 75 (1.310) | intergenic (+32/‑27) | csgA/csgC | curlin subunit, amyloid curli fibers, cryptic/curli assembly protein | |||||
| * | ? | NC_000913 | = 292301 | 77 (1.260) | 5 (0.090) | 5/264 | 7.6 | 6.4% | intergenic (+70/+21) | yagJ/yagK | CP4‑6 prophage; uncharacterized protein;Phage or Prophage Related/CP4‑6 prophage; conserved protein |
| ? | NC_000913 | = 292302 | 75 (1.320) | intergenic (+71/+20) | yagJ/yagK | CP4‑6 prophage; uncharacterized protein;Phage or Prophage Related/CP4‑6 prophage; conserved protein | |||||
| * | ? | NC_000913 | 3176791 = | 82 (1.340) | 4 (0.070) | 4/270 | 8.4 | 4.9% | coding (43/828 nt) | cpdA | 3',5' cAMP phosphodiesterase |
| ? | NC_000913 | 3176812 = | 78 (1.340) | coding (22/828 nt) | cpdA | 3',5' cAMP phosphodiesterase | |||||
| * | ? | NC_000913 | = 1396634 | NA (NA) | 4 (0.070) | 4/270 | 8.4 | 6.7% | noncoding (591/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 1428170 = | 59 (0.960) | noncoding (625/1196 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 274525 = | NA (NA) | 4 (0.070) | 4/270 | 8.4 | NA | noncoding (625/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274559 = | NA (NA) | noncoding (591/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 1396498 = | NA (NA) | 5 (0.080) +CGC |
4/278 | 8.6 | 7.2% | noncoding (455/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1428369 | 66 (1.080) | noncoding (426/1196 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 1189119 | 59 (0.960) | 4 (0.070) | 4/276 | 8.6 | 6.4% | coding (658/1461 nt) | phoQ | sensory histidine kinase in two‑component regulatory system with PhoP |
| ? | NC_000913 | = 1189142 | 60 (1.010) | coding (635/1461 nt) | phoQ | sensory histidine kinase in two‑component regulatory system with PhoP | |||||
| * | ? | NC_000913 | 274692 = | NA (NA) | 4 (0.070) | 4/276 | 8.6 | NA | noncoding (458/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274732 = | NA (NA) | noncoding (418/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 3775581 = | 66 (1.080) | 4 (0.070) | 4/282 | 8.7 | 5.6% | coding (10/588 nt) | mtlR | mannitol operon repressor |
| ? | NC_000913 | 3775605 = | 69 (1.140) | coding (34/588 nt) | mtlR | mannitol operon repressor | |||||
| * | ? | NC_000913 | 3392105 = | NA (NA) | 4 (0.070) +TCGGATAAGGCGTTT |
3/254 | 8.7 | NA | noncoding (30/308 nt) | REP245 (repetitive extragenic palindromic) element; contains 7 REP sequences | REP245 (repetitive extragenic palindromic) element; contains 7 REP sequences |
| ? | NC_000913 | = 3392363 | NA (NA) | noncoding (288/308 nt) | REP245 (repetitive extragenic palindromic) element; contains 7 REP sequences | REP245 (repetitive extragenic palindromic) element; contains 7 REP sequences | |||||