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 | 37.2% | 18.0 / 36.8 | 43 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 4,037,496 | 0 | A | T | 33.3% | 18.0 / 27.1 | 30 | intergenic (+161/‑23) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3423665 = | NA (NA) | 15 (0.310) | 12/280 | 3.7 | 24.1% | intergenic (‑10/+3) | thrV/rrfD | tRNA‑Thr/5S ribosomal RNA of rrnD operon |
| ? | NC_000913 | = 4171803 | 48 (0.970) | intergenic (+47/‑254) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding | |||||
| * | ? | NC_000913 | = 4094682 | NA (NA) | 18 (0.440) +23 bp |
7/238 | 4.6 | NA | noncoding (367/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | 4285324 = | NA (NA) | noncoding (23/77 nt) | REP320 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP320 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 4094338 = | NA (NA) | 21 (0.510) +23 bp |
7/238 | 4.6 | NA | noncoding (23/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | = 4094682 | NA (NA) | noncoding (367/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | NC_000913 | = 3946824 | 12 (0.240) | 12 (0.250) | 9/280 | 4.7 | 28.6% | intergenic (+5/‑48) | rrfC/aspT | 5S ribosomal RNA of rrnC operon/tRNA‑Asp |
| ? | NC_000913 | = 4171801 | 48 (0.980) | intergenic (+45/‑256) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding | |||||
| * | ? | NC_000913 | 2884485 = | 55 (1.110) | 3 (0.070) | 3/248 | 7.0 | 5.8% | intergenic (‑347/+68) | casA/ygcB | CRISP RNA (crRNA) containing Cascade antiviral complex protein/Cascade complex anti‑viral R‑loop helicase‑annealase Cas3 |
| ? | NC_000913 | 2884503 = | 49 (1.140) | intergenic (‑365/+50) | casA/ygcB | CRISP RNA (crRNA) containing Cascade antiviral complex protein/Cascade complex anti‑viral R‑loop helicase‑annealase Cas3 | |||||
| * | ? | NC_000913 | 4606558 = | NA (NA) | 3 (0.060) | 3/270 | 7.5 | NA | noncoding (1/92 nt) | REP351 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP351 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 4606590 = | NA (NA) | noncoding (33/92 nt) | REP351 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP351 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 2331239 = | 65 (1.310) | 3 (0.060) | 3/274 | 7.6 | 4.5% | pseudogene (3164/4605 nt) | yfaS | pseudogene, bacterial alpha2‑macroglobulin YfaS variant family; putative membrane protein |
| ? | NC_000913 | 2331336 = | 65 (1.360) | pseudogene (3067/4605 nt) | yfaS | pseudogene, bacterial alpha2‑macroglobulin YfaS variant family; putative membrane protein | |||||
| * | ? | NC_000913 | = 3161672 | 62 (1.250) | 4 (0.080) | 3/278 | 7.7 | 5.9% | coding (998/1413 nt) | ftsP | septal ring component that protects the divisome from stress; multicopy suppressor of ftsI(Ts) |
| ? | NC_000913 | = 3161700 | 66 (1.360) | coding (970/1413 nt) | ftsP | septal ring component that protects the divisome from stress; multicopy suppressor of ftsI(Ts) | |||||
| * | ? | NC_000913 | 700044 = | 50 (1.010) | 3 (0.060) | 3/278 | 7.7 | 5.7% | coding (283/753 nt) | umpH | UMP phosphatase |
| ? | NC_000913 | 700060 = | 50 (1.030) | coding (267/753 nt) | umpH | UMP phosphatase | |||||