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 | 3,180,506 | 0 | A | C | 28.6% | 24.8 / 12.0 | 21 | E29A (GAG→GCG) | ygiC | ATP‑Grasp family ATPase |
| * | NC_000913 | 448,581 | 0 | A | C | 23.3% | 52.6 / 14.4 | 30 | F27C (TTC→TGC) ‡ | cyoC | cytochrome o ubiquinol oxidase subunit III |
| * | NC_000913 | 448,582 | 0 | A | G | 23.3% | 51.6 / 12.9 | 30 | F27L (TTC→CTC) ‡ | cyoC | cytochrome o ubiquinol oxidase subunit III |
| * | NC_000913 | 2,753,986 | 0 | A | T | 23.1% | 97.0 / 27.1 | 52 | intergenic (+40/+22) | bamE/ratB | lipoprotein component of BamABCDE OM biogenesis complex/UPF0125 family protein |
| * | NC_000913 | 448,579 | 0 | C | T | 22.6% | 56.8 / 13.4 | 31 | G28R (GGA→AGA) | cyoC | cytochrome o ubiquinol oxidase subunit III |
| * | NC_000913 | 448,580 | 0 | G | T | 22.6% | 65.2 / 13.5 | 31 | F27L (TTC→TTA) ‡ | cyoC | cytochrome o ubiquinol oxidase subunit III |
| * | NC_000913 | 3,056,123 | 0 | A | C | 22.6% | 50.8 / 16.0 | 31 | noncoding (141/183 nt) | ssrS | 6S RNA inhibits RNA polymerase promoter binding |
| * | NC_000913 | 3,056,124 | 0 | A | T | 22.6% | 54.2 / 14.5 | 31 | noncoding (142/183 nt) | ssrS | 6S RNA inhibits RNA polymerase promoter binding |
| * | NC_000913 | 3,056,125 | 0 | G | T | 22.6% | 71.0 / 13.6 | 31 | noncoding (143/183 nt) | ssrS | 6S RNA inhibits RNA polymerase promoter binding |
| * | NC_000913 | 4,415,523 | 0 | G | C | 22.2% | 59.0 / 11.9 | 27 | E417Q (GAG→CAG) | aidB | DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase |
| * | NC_000913 | 4,415,526 | 0 | A | C | 22.2% | 50.6 / 14.0 | 27 | M418L (ATG→CTG) | aidB | DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase |
| * | NC_000913 | 884,407 | 0 | C | G | 21.7% | 49.3 / 10.7 | 23 | I245M (ATC→ATG) | mdfA | multidrug efflux system protein |
| * | NC_000913 | 884,410 | 0 | C | G | 21.7% | 45.9 / 10.9 | 23 | I246M (ATC→ATG) | mdfA | multidrug efflux system protein |
| * | NC_000913 | 4,415,528 | 0 | G | C | 21.4% | 62.2 / 12.0 | 28 | M418I (ATG→ATC) | aidB | DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase |
| * | NC_000913 | 3,183,345 | 1 | . | T | 21.1% | 91.4 / 33.6 | 38 | intergenic (+22/+468) | zupT/ribB | zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase |
| * | NC_000913 | 3,269,969 | 0 | A | C | 20.8% | 48.3 / 11.6 | 25 | intergenic (+367/+247) | yhaC/rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| * | NC_000913 | 4,296,060 | 0 | C | T | 20.0% | 81.1 / 15.0 | 40 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 67 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3185973 = | 60 (1.670) | 5 (0.150) | 5/238 | 3.2 | 8.3% | intergenic (+8/‑88) | ygiL/yqiG | putative fimbrial‑like adhesin protein/pseudogene; fimbrial export usher family;putative membrane; Not classified; putative membrane protein |
| ? | NC_000913 | 3185993 = | 54 (1.600) | intergenic (+28/‑68) | ygiL/yqiG | putative fimbrial‑like adhesin protein/pseudogene; fimbrial export usher family;putative membrane; Not classified; putative membrane protein | |||||
| * | ? | NC_000913 | 2304390 = | NA (NA) | 5 (0.140) | 5/254 | 3.3 | 29.4% | coding (486/489 nt) | eco | ecotin, a serine protease inhibitor |
| ? | NC_000913 | 2304923 = | 12 (0.330) | noncoding (507/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913 | 2304390 = | NA (NA) | 5 (0.140) | 5/254 | 3.3 | 45.5% | coding (486/489 nt) | eco | ecotin, a serine protease inhibitor |
| ? | NC_000913 | 2304697 = | 6 (0.170) | noncoding (281/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913 | 2304390 = | NA (NA) | 5 (0.140) | 5/254 | 3.3 | NA | coding (486/489 nt) | eco | ecotin, a serine protease inhibitor |
| ? | NC_000913 | 2304584 = | NA (NA) | noncoding (168/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913 | 2304390 = | NA (NA) | 5 (0.140) | 5/254 | 3.3 | 17.2% | coding (486/489 nt) | eco | ecotin, a serine protease inhibitor |
| ? | NC_000913 | 2304471 = | 24 (0.670) | noncoding (55/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913 | 740953 = | NA (NA) | 4 (0.120) +AGAAGCTATAAG |
4/230 | 3.4 | NA | intergenic (+28/+122) | phr/dtpD | deoxyribodipyrimidine photolyase, FAD‑binding/dipeptide and tripeptide permease D |
| ? | NC_000913 | 3877544 = | NA (NA) | intergenic (‑79/+161) | yidB/gyrB | DUF937 family protein/DNA gyrase, subunit B | |||||
| * | ? | NC_000913 | = 5670 | NA (NA) | 4 (0.120) +AGAAGCTATAAG |
4/230 | 3.4 | NA | intergenic (+140/+13) | yaaX/yaaA | DUF2502 family putative periplasmic protein/peroxide resistance protein, lowers intracellular iron |
| ? | NC_000913 | 3877544 = | NA (NA) | intergenic (‑79/+161) | yidB/gyrB | DUF937 family protein/DNA gyrase, subunit B | |||||
| * | ? | NC_000913 | = 4303131 | 36 (1.000) | 4 (0.120) | 4/240 | 3.5 | 10.7% | coding (979/1032 nt) | mdtN | membrane fusion protein of efflux pump |
| ? | NC_000913 | = 4303157 | 33 (0.970) | coding (953/1032 nt) | mdtN | membrane fusion protein of efflux pump | |||||
| * | ? | NC_000913 | 3521815 = | 34 (0.940) | 4 (0.120) | 4/236 | 3.5 | 11.0% | coding (158/540 nt) | hofN | DNA catabolic putative fimbrial assembly protein |
| ? | NC_000913 | 3521857 = | 33 (0.990) | coding (116/540 nt) | hofN | DNA catabolic putative fimbrial assembly protein | |||||
| * | ? | NC_000913 | = 3262188 | 37 (1.030) | 4 (0.120) | 4/236 | 3.5 | 10.6% | coding (231/2295 nt) | tdcE | pyruvate formate‑lyase 4/2‑ketobutyrate formate‑lyase |
| ? | NC_000913 | = 3262210 | 33 (0.990) | coding (209/2295 nt) | tdcE | pyruvate formate‑lyase 4/2‑ketobutyrate formate‑lyase | |||||