mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.32.0b
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 | ||
| * | CP009273 | 3,208,007 | 0 | T | G | 23.4% | 150.5 / 11.7 | 77 | S534S (TCT→TCG) | rpoD | RNA polymerase, sigma 70 (sigma D) factor |
| * | CP009273 | 2,355,014 | 0 | A | T | 21.7% | 120.0 / 13.6 | 60 | I226N (ATC→AAC) | rhmR | putative DNA‑binding transcriptional regulator for the rhm operon |
| * | CP009273 | 3,208,019 | 0 | A | G | 20.8% | 151.2 / 17.2 | 79 | E538E (GAA→GAG) | rpoD | RNA polymerase, sigma 70 (sigma D) factor |
| Marginal new junction evidence (lowest skew 10 of 38 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 4161373 | 6 (0.110) | 11 (0.210) | 6/290 | 5.9 | 65.2% | noncoding (2805/2904 nt) | rrlB | 23S ribosomal RNA of rrnB operon |
| ? | CP009273 | = 4202760 | NA (NA) | noncoding (2790/2904 nt) | rrlE | 23S ribosomal RNA of rrnE operon | |||||
| * | ? | CP009273 | 3791581 = | 61 (1.120) | 5 (0.100) | 5/270 | 6.0 | 8.4% | intergenic (+14/+18) | waaL/waaU | O‑antigen ligase/lipopolysaccharide core biosynthesis |
| ? | CP009273 | 3791609 = | 54 (1.090) | coding (1064/1074 nt) | waaU | lipopolysaccharide core biosynthesis | |||||
| * | ? | CP009273 | = 1310652 | 34 (0.620) | 5 (0.100) | 5/280 | 6.2 | 13.9% | intergenic (‑360/+21) | yciG/trpA | KGG family protein/tryptophan synthase, alpha subunit |
| ? | CP009273 | = 1310657 | 30 (0.580) | intergenic (‑365/+16) | yciG/trpA | KGG family protein/tryptophan synthase, alpha subunit | |||||
| * | ? | CP009273 | = 3613580 | NA (NA) | 5 (0.100) | 5/284 | 6.3 | 100% | coding (1029/4236 nt) | rhsB | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor |
| ? | CP009273 | = 3613615 | 0 (0.000) | coding (1064/4236 nt) | rhsB | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor | |||||
| * | ? | CP009273 | 2871241 = | 93 (1.710) | 7 (0.130) | 5/286 | 6.3 | 7.1% | intergenic (+264/+687) | iap/ygbF | aminopeptidase in alkaline phosphatase isozyme conversion/CRISPR adaptation ssRNA endonuclease |
| ? | CP009273 | 2871277 = | 92 (1.750) | intergenic (+300/+651) | iap/ygbF | aminopeptidase in alkaline phosphatase isozyme conversion/CRISPR adaptation ssRNA endonuclease | |||||
| * | ? | CP009273 | = 726099 | 70 (1.280) | 6 (0.110) | 5/290 | 6.4 | 8.0% | coding (1061/4194 nt) | rhsC | Rhs family putative polymorphic toxin |
| ? | CP009273 | = 3613583 | NA (NA) | coding (1032/4236 nt) | rhsB | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor | |||||
| * | ? | CP009273 | = 4532507 | 45 (0.830) | 4 (0.080) | 4/278 | 6.7 | 7.7% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 54 (1.050) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | = 311406 | NA (NA) | 4 (0.080) | 4/284 | 6.8 | NA | coding (109/867 nt) | insF1 | IS3 transposase B |
| ? | CP009273 | = 311430 | NA (NA) | coding (133/867 nt) | insF1 | IS3 transposase B | |||||
| * | ? | CP009273 | 3519931 = | 59 (1.080) | 4 (0.080) | 4/288 | 6.9 | 6.1% | coding (104/2136 nt) | yrfF | inner membrane protein |
| ? | CP009273 | 3519957 = | 65 (1.230) | coding (130/2136 nt) | yrfF | inner membrane protein | |||||
| * | ? | CP009273 | 1990235 = | 41 (0.750) | 4 (0.080) | 4/286 | 6.9 | 9.2% | coding (79/723 nt) | sdiA | quorum‑sensing transcriptional activator |
| ? | CP009273 | 1990253 = | 39 (0.740) | coding (61/723 nt) | sdiA | quorum‑sensing transcriptional activator | |||||