mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.32.0 revision 6ff6de7d1b87
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 | 1,598,904 | 0 | T | C | 25.0% | 54.7 / 13.4 | 36 | S436G (AGT→GGT) | lsrK | autoinducer‑2 (AI‑2) kinase |
| Marginal new junction evidence (lowest skew 10 of 13 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3423663 = | NA (NA) | 6 (0.140) | 5/280 | 5.5 | 11.1% | intergenic (‑10/+3) | thrV/rrfD | tRNA‑Thr/5S ribosomal RNA of rrnD operon |
| ? | NC_000913 | = 4171802 | 49 (1.090) | intergenic (+47/‑254) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding | |||||
| * | ? | NC_000913 | = 4542691 | 57 (1.270) | 4 (0.090) | 4/266 | 5.8 | 6.7% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542987 | 58 (1.380) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 2196341 = | 51 (1.130) | 4 (0.090) | 4/266 | 5.8 | 7.8% | intergenic (+10/‑131) | metG/yehH | methionyl‑tRNA synthetase/DUF4132 family pseudogene, defective yehI paralog, molybdate metabolism regulator, first fragment, molybdate metabolism regulator, second fragment 2, yehI' molR mutations have phenotypes and the N‑terminal molR fragment of yehI' may be expressed and may have retained or evolved MolR function |
| ? | NC_000913 | 2196365 = | 47 (1.120) | intergenic (+34/‑107) | metG/yehH | methionyl‑tRNA synthetase/DUF4132 family pseudogene, defective yehI paralog, molybdate metabolism regulator, first fragment, molybdate metabolism regulator, second fragment 2, yehI' molR mutations have phenotypes and the N‑terminal molR fragment of yehI' may be expressed and may have retained or evolved MolR function | |||||
| * | ? | NC_000913 | = 2600971 | 49 (1.090) | 4 (0.090) | 4/270 | 5.9 | 7.4% | intergenic (+25/‑228) | bcp/hyfA | peroxiredoxin, thiol peroxidase, thioredoxin‑dependent/hydrogenase 4, 4Fe‑4S subunit |
| ? | NC_000913 | = 2600981 | 54 (1.260) | intergenic (+35/‑218) | bcp/hyfA | peroxiredoxin, thiol peroxidase, thioredoxin‑dependent/hydrogenase 4, 4Fe‑4S subunit | |||||
| * | ? | NC_000913 | 2460603 = | 34 (0.760) | 3 (0.070) | 3/266 | 6.4 | 8.4% | intergenic (‑136/+45) | fadI/yfcZ | beta‑ketoacyl‑CoA thiolase, anaerobic, subunit/UPF0381 family protein |
| ? | NC_000913 | 2460632 = | 34 (0.810) | intergenic (‑165/+16) | fadI/yfcZ | beta‑ketoacyl‑CoA thiolase, anaerobic, subunit/UPF0381 family protein | |||||
| * | ? | NC_000913 | = 1387244 | 38 (0.840) | 3 (0.070) | 3/268 | 6.4 | 7.3% | coding (525/1542 nt) | tyrR | aromatic amino acid biosynthesis and transport regulon transcriptional regulator, autorepressor, ATPase, phosphatase |
| ? | NC_000913 | = 1387310 | 40 (0.940) | coding (591/1542 nt) | tyrR | aromatic amino acid biosynthesis and transport regulon transcriptional regulator, autorepressor, ATPase, phosphatase | |||||
| * | ? | NC_000913 | = 4158459 | 55 (1.220) | 3 (0.070) | 3/270 | 6.5 | 5.6% | intergenic (‑66/‑30) | oxyS/oxyR | sRNA antisense regulator activates genes that detoxify oxidative damage, Hfq‑dependent/oxidative and nitrosative stress transcriptional regulator |
| ? | NC_000913 | = 4158469 | 48 (1.120) | intergenic (‑76/‑20) | oxyS/oxyR | sRNA antisense regulator activates genes that detoxify oxidative damage, Hfq‑dependent/oxidative and nitrosative stress transcriptional regulator | |||||
| * | ? | NC_000913 | = 3620254 | 0 (0.000) | 3 (0.070) | 3/272 | 6.5 | 100% | coding (1064/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain, putative neighboring cell growth inhibitor |
| ? | NC_000913 | = 3763210 | 0 (0.000) | coding (1029/4134 nt) | rhsA | Rhs protein with putative toxin 55 domain, putative polysaccharide synthesis/export protein, putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 954845 = | 48 (1.070) | 3 (0.070) | 3/270 | 6.5 | 6.3% | intergenic (‑379/+27) | focA/ycaO | formate channel/ribosomal protein S12 methylthiotransferase accessory factor |
| ? | NC_000913 | 954864 = | 44 (1.030) | intergenic (‑398/+8) | focA/ycaO | formate channel/ribosomal protein S12 methylthiotransferase accessory factor | |||||
| * | ? | NC_000913 | 781577 = | 46 (1.020) | 24 (0.550) +GAAG |
3/276 | 6.6 | 36.2% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521004 | 41 (0.910) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||