mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
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 | 1,388,283 | 0 | C | T | 37.5% | 10.6 / 11.5 | 16 | intergenic (+22/+22) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| * | NC_000913 | 1,388,284 | 0 | A | T | 37.5% | 12.2 / 11.8 | 16 | intergenic (+23/+21) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| * | NC_000913 | 1,388,285 | 0 | A | G | 37.5% | 9.5 / 12.0 | 16 | intergenic (+24/+20) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| * | NC_000913 | 2,304,523 | 0 | G | C | 33.3% | 8.6 / 12.3 | 15 | intergenic (+130/+585) | eco/mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| * | NC_000913 | 4,296,060 | 0 | C | T | 32.7% | 71.6 / 45.2 | 55 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,136,114 | 0 | T | A | 31.2% | 12.1 / 10.1 | 16 | V184D (GTT→GAT) | flgH | flagellar protein of basal‑body outer‑membrane L ring |
| * | NC_000913 | 1,136,116 | 0 | A | T | 31.2% | 14.4 / 10.1 | 16 | N185Y (AAT→TAT) | flgH | flagellar protein of basal‑body outer‑membrane L ring |
| * | NC_000913 | 2,090,126 | 0 | C | T | 22.6% | 58.5 / 13.0 | 32 | intergenic (+80/‑66) | hisL/hisG | his operon leader peptide/ATP phosphoribosyltransferase |
| * | NC_000913 | 2,090,122 | 0 | A | G | 21.9% | 56.2 / 13.7 | 32 | intergenic (+76/‑70) | hisL/hisG | his operon leader peptide/ATP phosphoribosyltransferase |
| * | NC_000913 | 2,090,124 | 0 | C | G | 21.9% | 69.0 / 18.1 | 32 | intergenic (+78/‑68) | hisL/hisG | his operon leader peptide/ATP phosphoribosyltransferase |
| * | NC_000913 | 882,263 | 1 | . | A | 21.1% | 45.1 / 13.2 | 19 | coding (472/759 nt) | deoR | deoxyribose‑5‑phosphate‑inducible deoxyribose operon transcriptional repressor; repressor of nupG and tsx |
| * | NC_000913 | 4,204,124 | 1 | . | G | 21.1% | 41.7 / 15.5 | 19 | coding (805/1326 nt) | zraR | fused DNA‑binding response regulator in two‑component regulatory system with ZraS: response regulator/sigma54 interaction protein |
| * | NC_000913 | 1,555,781 | 0 | G | C | 20.7% | 68.9 / 11.1 | 29 | intergenic (‑112/+45) | maeA/sra | malate dehydrogenase, decarboxylating, NAD‑requiring; malic enzyme/stationary‑phase‑induced ribosome‑associated protein |
| * | NC_000913 | 3,332,822 | 0 | G | A | 20.6% | 66.1 / 12.8 | 34 | intergenic (‑87/+40) | yhbE/rpmA | EamA family inner membrane putative transporter/50S ribosomal subunit protein L27 |
| * | NC_000913 | 3,332,823 | 0 | T | C | 20.6% | 63.7 / 13.4 | 34 | intergenic (‑88/+39) | yhbE/rpmA | EamA family inner membrane putative transporter/50S ribosomal subunit protein L27 |
| Marginal new junction evidence (lowest skew 10 of 48 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 3758224 | 59 (1.630) | 8 (0.240) | 8/224 | 1.9 | 12.7% | coding (1638/1845 nt) | selB | selenocysteinyl‑tRNA‑specific translation factor |
| ? | NC_000913 | = 3758230 | 55 (1.630) | coding (1632/1845 nt) | selB | selenocysteinyl‑tRNA‑specific translation factor | |||||
| * | ? | NC_000913 | 4406040 = | 37 (1.020) | 6 (0.180) | 6/222 | 2.3 | 16.0% | intergenic (+55/‑150) | purA/nsrR | adenylosuccinate synthetase/nitric oxide‑sensitive repressor for NO regulon |
| ? | NC_000913 | 4406075 = | 29 (0.870) | intergenic (+90/‑115) | purA/nsrR | adenylosuccinate synthetase/nitric oxide‑sensitive repressor for NO regulon | |||||
| * | ? | NC_000913 | = 2589519 | 28 (0.770) | 6 (0.170) | 6/232 | 2.4 | 16.4% | coding (1925/3114 nt) | acrD | aminoglycoside/multidrug efflux system |
| ? | NC_000913 | = 2589539 | 34 (0.970) | coding (1945/3114 nt) | acrD | aminoglycoside/multidrug efflux system | |||||
| * | ? | NC_000913 | = 4214492 | 63 (1.740) | 5 (0.150) | 5/224 | 2.6 | 7.4% | coding (213/930 nt) | metA | homoserine O‑transsuccinylase |
| ? | NC_000913 | = 4214509 | 67 (1.980) | coding (230/930 nt) | metA | homoserine O‑transsuccinylase | |||||
| * | ? | NC_000913 | = 4585317 | 36 (0.990) | 4 (0.120) | 4/226 | 2.8 | 9.5% | coding (1445/3513 nt) | hsdR | endonuclease R Type I restriction enzyme |
| ? | NC_000913 | = 4585344 | 42 (1.230) | coding (1418/3513 nt) | hsdR | endonuclease R Type I restriction enzyme | |||||
| * | ? | NC_000913 | 4477260 = | 50 (1.380) | 4 (0.120) | 4/220 | 2.8 | 8.5% | intergenic (+9/+47) | yjgL/argI | SopA‑central‑domain‑like hexapeptide repeat protein/ornithine carbamoyltransferase 1 |
| ? | NC_000913 | 4477291 = | 40 (1.200) | intergenic (+40/+16) | yjgL/argI | SopA‑central‑domain‑like hexapeptide repeat protein/ornithine carbamoyltransferase 1 | |||||
| * | ? | NC_000913 | 4317083 = | 19 (0.520) | 4 (0.120) | 4/224 | 2.8 | 17.1% | coding (136/1137 nt) | phnM | ribophosphonate triphosphate hydrolase |
| ? | NC_000913 | 4317120 = | 21 (0.620) | coding (99/1137 nt) | phnM | ribophosphonate triphosphate hydrolase | |||||
| * | ? | NC_000913 | = 4295726 | 60 (1.650) | 4 (0.120) | 4/224 | 2.8 | 6.8% | coding (1246/1314 nt) | gltP | glutamate/aspartate:proton symporter |
| ? | NC_000913 | = 4295766 | 54 (1.600) | coding (1286/1314 nt) | gltP | glutamate/aspartate:proton symporter | |||||
| * | ? | NC_000913 | 4239740 = | 60 (1.650) | 4 (0.120) | 4/218 | 2.8 | 7.2% | intergenic (+10/+37) | yjbH/yjbT | DUF940 family extracellular polysaccharide protein/putative periplasmic protein |
| ? | NC_000913 | 4239772 = | 48 (1.460) | intergenic (+42/+5) | yjbH/yjbT | DUF940 family extracellular polysaccharide protein/putative periplasmic protein | |||||
| * | ? | NC_000913 | 4168332 = | 28 (0.770) | 4 (0.120) | 4/220 | 2.8 | 16.1% | intergenic (+132/‑40) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu |
| ? | NC_000913 | 4168374 = | 16 (0.480) | noncoding (3/76 nt) | gltT | tRNA‑Glu | |||||