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 (highest frequency 20 of 28 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,270,080 | 0 | C | T | 50.0% | 3.4 / 14.4 | 14 | intergenic (+478/+136) | yhaC/rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| * | NC_000913 | 3,270,081 | 0 | G | T | 50.0% | 5.0 / 15.3 | 14 | intergenic (+479/+135) | yhaC/rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| * | NC_000913 | 3,270,082 | 0 | A | C | 50.0% | 4.3 / 19.4 | 14 | intergenic (+480/+134) | yhaC/rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| * | NC_000913 | 3,270,083 | 0 | A | G | 50.0% | 1.5 / 16.1 | 14 | intergenic (+481/+133) | yhaC/rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| * | NC_000913 | 475,971 | 0 | C | G | 40.9% | 8.3 / 26.3 | 22 | intergenic (+20/+11) | ybaY/ybaZ | outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL |
| * | NC_000913 | 475,972 | 0 | C | G | 40.9% | 10.0 / 27.3 | 22 | intergenic (+21/+10) | ybaY/ybaZ | outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL |
| * | NC_000913 | 1,306,787 | 0 | G | A | 36.8% | 11.2 / 15.2 | 19 | intergenic (+19/+34) | oppF/yciU | oligopeptide ABC transporter ATPase/UPF0263 family protein |
| * | NC_000913 | 1,306,788 | 0 | T | C | 36.8% | 11.1 / 15.1 | 19 | intergenic (+20/+33) | oppF/yciU | oligopeptide ABC transporter ATPase/UPF0263 family protein |
| * | NC_000913 | 1,207,936 | 0 | G | . | 36.4% | 18.2 / 11.2 | 11 | coding (436/630 nt) | stfP | e14 prophage; uncharacterized protein |
| * | NC_000913 | 1,799,374 | 1 | . | T | 33.3% | 17.4 / 24.2 | 18 | intergenic (‑104/+19) | pheM/rplT | phenylalanyl‑tRNA synthetase operon leader peptide/50S ribosomal subunit protein L20 |
| * | NC_000913 | 3,548,571 | 0 | G | T | 31.2% | 15.7 / 10.5 | 16 | T500T (ACC→ACA) | malQ | 4‑alpha‑glucanotransferase (amylomaltase) |
| * | NC_000913 | 1,260,901 | 0 | C | T | 30.4% | 26.3 / 14.1 | 24 | intergenic (‑98/+27) | dauA/prs | C4‑dicarboxylic acid transporter/phosphoribosylpyrophosphate synthase |
| * | NC_000913 | 1,799,370 | 0 | A | . | 30.0% | 44.9 / 17.2 | 20 | intergenic (‑100/+23) | pheM/rplT | phenylalanyl‑tRNA synthetase operon leader peptide/50S ribosomal subunit protein L20 |
| * | NC_000913 | 1,260,904 | 0 | A | G | 28.0% | 32.7 / 14.1 | 25 | intergenic (‑101/+24) | dauA/prs | C4‑dicarboxylic acid transporter/phosphoribosylpyrophosphate synthase |
| * | NC_000913 | 2,691,171 | 0 | T | A | 25.0% | 58.0 / 16.2 | 32 | noncoding (170/184 nt) | glmY | sRNA activator of glmS mRNA, glmZ processing antagonist |
| * | NC_000913 | 2,691,173 | 0 | A | T | 25.0% | 57.8 / 13.8 | 32 | noncoding (168/184 nt) | glmY | sRNA activator of glmS mRNA, glmZ processing antagonist |
| * | NC_000913 | 925,899 | 0 | G | . | 24.0% | 61.2 / 17.8 | 25 | noncoding (73/88 nt) | serW | tRNA‑Ser |
| * | NC_000913 | 4,009,765 | 0 | G | C | 22.6% | 69.3 / 15.2 | 31 | G199A (GGG→GCG) | pldB | lysophospholipase L2 |
| * | NC_000913 | 4,009,771 | 0 | G | A | 22.6% | 57.7 / 12.9 | 31 | W201* (TGG→TAG) | pldB | lysophospholipase L2 |
| * | NC_000913 | 925,900 | 0 | A | . | 22.2% | 68.4 / 16.8 | 27 | noncoding (72/88 nt) | serW | tRNA‑Ser |
| Marginal new junction evidence (lowest skew 10 of 49 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4426591 | 34 (1.130) | 6 (0.230) | 6/196 | 2.2 | 15.4% | intergenic (+34/+37) | rplI/yjfZ | 50S ribosomal subunit protein L9/uncharacterized protein |
| ? | NC_000913 | = 4426592 | 36 (1.360) | intergenic (+35/+36) | rplI/yjfZ | 50S ribosomal subunit protein L9/uncharacterized protein | |||||
| * | ? | NC_000913 | = 427762 | 27 (0.900) | 6 (0.210) | 6/208 | 2.3 | 16.6% | coding (116/1848 nt) | secD | SecYEG protein translocase auxillary subunit |
| ? | NC_000913 | = 427779 | 35 (1.240) | coding (133/1848 nt) | secD | SecYEG protein translocase auxillary subunit | |||||
| * | ? | NC_000913 | 1220754 = | 39 (1.300) | 6 (0.210) | 6/210 | 2.4 | 14.6% | pseudogene (1154/2574 nt) | ycgH | pseudogene; putative ATP‑binding component of a transport system |
| ? | NC_000913 | 1220775 = | 33 (1.160) | pseudogene (1175/2574 nt) | ycgH | pseudogene; putative ATP‑binding component of a transport system | |||||
| * | ? | NC_000913 | 1859579 = | 29 (0.960) | 6 (0.210) | 5/208 | 2.6 | 18.7% | coding (651/1380 nt) | ydjK | putative MFS sugar transporter, membrane protein |
| ? | NC_000913 | 1859626 = | 25 (0.890) | coding (604/1380 nt) | ydjK | putative MFS sugar transporter, membrane protein | |||||
| * | ? | NC_000913 | 4621634 = | 36 (1.200) | 4 (0.150) | 4/202 | 2.9 | 11.5% | intergenic (+32/‑135) | deoD/yjjJ | purine nucleoside phosphorylase 1; nicotinamide 1‑beta‑D‑riboside phosphorylase/putative protein kinase |
| ? | NC_000913 | 4621662 = | 29 (1.060) | intergenic (+60/‑107) | deoD/yjjJ | purine nucleoside phosphorylase 1; nicotinamide 1‑beta‑D‑riboside phosphorylase/putative protein kinase | |||||
| * | ? | NC_000913 | 3783137 = | 24 (0.800) | 4 (0.140) | 4/208 | 2.9 | 18.0% | coding (525/1020 nt) | gpsA | glycerol‑3‑phosphate dehydrogenase (NAD+) |
| ? | NC_000913 | 3783176 = | 14 (0.500) | coding (486/1020 nt) | gpsA | glycerol‑3‑phosphate dehydrogenase (NAD+) | |||||
| * | ? | NC_000913 | = 3467138 | 33 (1.100) | 4 (0.140) | 4/206 | 2.9 | 12.2% | intergenic (‑147/+22) | bfd/chiA | bacterioferritin‑associated ferredoxin/periplasmic endochitinase |
| ? | NC_000913 | = 3467144 | 27 (0.970) | intergenic (‑153/+16) | bfd/chiA | bacterioferritin‑associated ferredoxin/periplasmic endochitinase | |||||
| * | ? | NC_000913 | 2565932 = | 21 (0.700) | 4 (0.140) | 4/206 | 2.9 | 16.5% | coding (953/1404 nt) | eutA | reactivating factor for ethanolamine ammonia lyase |
| ? | NC_000913 | 2565963 = | 21 (0.750) | coding (922/1404 nt) | eutA | reactivating factor for ethanolamine ammonia lyase | |||||
| * | ? | NC_000913 | 1484129 = | 31 (1.030) | 4 (0.140) | 4/204 | 2.9 | 12.6% | coding (1069/3903 nt) | hrpA | putative ATP‑dependent helicase |
| ? | NC_000913 | 1484164 = | 27 (0.980) | coding (1104/3903 nt) | hrpA | putative ATP‑dependent helicase | |||||
| * | ? | NC_000913 | = 1475100 | 49 (1.630) | 4 (0.150) | 4/202 | 2.9 | 7.9% | intergenic (+19/‑44) | ydbC/ydbD | putative NAD(P)‑binding oxidoreductase/PF10971 family putative periplasmic methylglyoxal resistance protein |
| ? | NC_000913 | = 1475106 | 49 (1.790) | intergenic (+25/‑38) | ydbC/ydbD | putative NAD(P)‑binding oxidoreductase/PF10971 family putative periplasmic methylglyoxal resistance protein | |||||