mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 9,907 | A→C | 7.1% | intergenic (+14/+21) | mog → / ← satP | molybdochelatase incorporating molybdenum into molybdopterin/succinate‑acetate transporter |
| RA | 9,908 | G→T | 7.1% | intergenic (+15/+20) | mog → / ← satP | molybdochelatase incorporating molybdenum into molybdopterin/succinate‑acetate transporter |
| RA | 83,587 | A→C | 7.1% | intergenic (‑58/+35) | leuA ← / ← leuL | 2‑isopropylmalate synthase/leu operon leader peptide |
| RA | 83,590 | G→T | 7.1% | intergenic (‑61/+32) | leuA ← / ← leuL | 2‑isopropylmalate synthase/leu operon leader peptide |
| RA | 164,581 | A→C | 17.1% | intergenic (+47/‑149) | hrpB → / → mrcB | putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase |
| RA | 173,453 | T→A | 9.3% | intergenic (+9/+149) | fhuB → / ← hemL | iron(3+)‑hydroxamate import ABC transporter permease/glutamate‑1‑semialdehyde aminotransferase (aminomutase) |
| RA | 175,144 | Δ1 bp | 5.3% | coding (38/1422 nt) | clcA → | H(+)/Cl(‑) exchange transporter |
| RA | 175,149:1 | +G | 5.3% | coding (43/1422 nt) | clcA → | H(+)/Cl(‑) exchange transporter |
| RA | 256,454 | C→G | 5.2% | intergenic (+19/‑73) | gpt → / → frsA | xanthine phosphoribosyltransferase; xanthine‑guanine phosphoribosyltransferase/fermentation‑respiration switch protein; PTS Enzyme IIA(Glc)‑binding protein; pNP‑butyrate esterase activity |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 289,256 | G→C | 6.4% | intergenic (‑94/+45) | yagI ← / ← argF | CP4‑6 prophage; putative DNA‑binding transcriptional regulator/ornithine carbamoyltransferase 2, chain F; CP4‑6 prophage |
| RA | 289,257 | T→A | 5.9% | intergenic (‑95/+44) | yagI ← / ← argF | CP4‑6 prophage; putative DNA‑binding transcriptional regulator/ornithine carbamoyltransferase 2, chain F; CP4‑6 prophage |
| RA | 349,717 | T→C | 7.0% | intergenic (+145/‑295) | prpB → / → prpC | 2‑methylisocitrate lyase/2‑methylcitrate synthase |
| RA | 357,775 | A→T | 6.4% | intergenic (+321/+16) | codA → / ← cynR | cytosine/isoguanine deaminase/transcriptional activator of cyn operon; autorepressor |
| RA | 361,895 | A→C | 5.1% | intergenic (‑35/+31) | lacA ← / ← lacY | thiogalactoside acetyltransferase/lactose permease |
| RA | 423,539 | T→G | 6.3% | L341R (CTG→CGG) | malZ → | maltodextrin glucosidase |
| RA | 644,030 | A→G | 6.7% | intergenic (‑63/+167) | rnk ← / ← rna | regulator of nucleoside diphosphate kinase/ribonuclease I |
| RA | 644,034 | T→C | 6.7% | intergenic (‑67/+163) | rnk ← / ← rna | regulator of nucleoside diphosphate kinase/ribonuclease I |
| RA | 644,036 | A→T | 6.7% | intergenic (‑69/+161) | rnk ← / ← rna | regulator of nucleoside diphosphate kinase/ribonuclease I |
| RA | 644,038 | G→A | 6.8% | intergenic (‑71/+159) | rnk ← / ← rna | regulator of nucleoside diphosphate kinase/ribonuclease I |
| RA | 644,042 | C→T | 6.8% | intergenic (‑75/+155) | rnk ← / ← rna | regulator of nucleoside diphosphate kinase/ribonuclease I |
| RA | 672,110 | G→A | 5.7% | T26I (ACC→ATC) | lptE ← | LPS assembly OM complex LptDE, lipoprotein component |
| RA | 672,113 | T→C | 5.6% | D25G (GAT→GGT) | lptE ← | LPS assembly OM complex LptDE, lipoprotein component |
| RA | 756,331 | G→T | 6.5% | G142V (GGT→GTT) | sdhA → | succinate dehydrogenase, flavoprotein subunit |
| RA | 756,886 | T→G | 86.7% | L327R (CTG→CGG) | sdhA → | succinate dehydrogenase, flavoprotein subunit |
| RA | 780,841:1 | +T | 6.1% | intergenic (+1/‑2) | valT → / → lysW | tRNA‑Val/tRNA‑Lys |
| RA | 781,234 | A→G | 5.2% | intergenic (+12/‑135) | lysY → / → lysZ | tRNA‑Lys/tRNA‑Lys |
| RA | 781,238 | T→A | 8.1% | intergenic (+16/‑131) | lysY → / → lysZ | tRNA‑Lys/tRNA‑Lys |
| RA | 781,668 | C→T | 5.1% | intergenic (+16/‑417) | lysQ → / → nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| RA | 781,670 | A→T | 5.1% | intergenic (+18/‑415) | lysQ → / → nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| RA | 781,672 | A→G | 5.1% | intergenic (+20/‑413) | lysQ → / → nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| RA | 860,151 | A→G | 5.7% | intergenic (‑123/+23) | ybiV ← / ← ybiW | sugar phosphatase; fructose‑1‑P/ribose‑5‑P/glucose‑6‑P phosphatase/putative pyruvate formate lyase |
| RA | 860,154 | A→T | 6.3% | intergenic (‑126/+20) | ybiV ← / ← ybiW | sugar phosphatase; fructose‑1‑P/ribose‑5‑P/glucose‑6‑P phosphatase/putative pyruvate formate lyase |
| RA | 860,157 | C→T | 6.7% | intergenic (‑129/+17) | ybiV ← / ← ybiW | sugar phosphatase; fructose‑1‑P/ribose‑5‑P/glucose‑6‑P phosphatase/putative pyruvate formate lyase |
| RA | 897,968:1 | +A | 5.1% | intergenic (+39/‑21) | potI → / → ybjO | putrescine ABC transporter permease/DUF2593 family inner membrane protein |
| RA | 993,254 | A→G | 5.3% | intergenic (+20/+23) | pepN → / ← ssuB | aminopeptidase N/aliphatic sulfonate ABC transporter ATPase |
| RA | 993,255 | A→C | 5.8% | intergenic (+21/+22) | pepN → / ← ssuB | aminopeptidase N/aliphatic sulfonate ABC transporter ATPase |
| RA | 993,258 | G→T | 5.6% | intergenic (+24/+19) | pepN → / ← ssuB | aminopeptidase N/aliphatic sulfonate ABC transporter ATPase |
| RA | 993,259 | C→T | 5.9% | intergenic (+25/+18) | pepN → / ← ssuB | aminopeptidase N/aliphatic sulfonate ABC transporter ATPase |
| RA | 1,164,546 | A→T | 9.3% | D151V (GAT→GTT) | nagZ → | beta N‑acetyl‑glucosaminidase |
| RA | 1,169,380 | T→C | 6.7% | intergenic (+50/+32) | bhsA → / ← ldtC | biofilm, cell surface and signaling protein/L,D‑transpeptidase linking Lpp to murein |
| RA | 1,169,382 | C→G | 6.8% | intergenic (+52/+30) | bhsA → / ← ldtC | biofilm, cell surface and signaling protein/L,D‑transpeptidase linking Lpp to murein |
| RA | 1,169,384 | G→A | 6.8% | intergenic (+54/+28) | bhsA → / ← ldtC | biofilm, cell surface and signaling protein/L,D‑transpeptidase linking Lpp to murein |
| RA | 1,287,041 | A→G | 6.3% | intergenic (+515/+25) | narI → / ← rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| RA | 1,311,830 | A→G | 8.7% | intergenic (+22/+18) | tonB → / ← yciA | membrane spanning protein in TonB‑ExbB‑ExbD transport complex/acyl‑CoA esterase |
| RA | 1,311,831 | C→T | 8.7% | intergenic (+23/+17) | tonB → / ← yciA | membrane spanning protein in TonB‑ExbB‑ExbD transport complex/acyl‑CoA esterase |
| RA | 1,314,682 | A→T | 5.6% | intergenic (+24/+36) | ompW → / ← yciE | outer membrane protein W/putative rubrerythrin/ferritin‑like metal‑binding protein |
| RA | 1,314,683 | T→A | 5.5% | intergenic (+25/+35) | ompW → / ← yciE | outer membrane protein W/putative rubrerythrin/ferritin‑like metal‑binding protein |
| RA | 1,314,684 | A→T | 5.6% | intergenic (+26/+34) | ompW → / ← yciE | outer membrane protein W/putative rubrerythrin/ferritin‑like metal‑binding protein |
| RA | 1,324,837 | A→C | 5.2% | Y31S (TAT→TCT) ‡ | yciQ → | enhancer of membrane protein expression; putative inner membrane protein |
| RA | 1,324,838 | T→A | 5.1% | Y31* (TAT→TAA) ‡ | yciQ → | enhancer of membrane protein expression; putative inner membrane protein |
| RA | 1,324,839 | G→T | 5.2% | E32* (GAA→TAA) | yciQ → | enhancer of membrane protein expression; putative inner membrane protein |
| RA | 1,351,228 | G→C | 8.4% | intergenic (‑189/+179) | fabI ← / ← ycjD | enoyl‑[acyl‑carrier‑protein] reductase, NADH‑dependent/DUF559 family endonuclease‑related protein |
| RA | 1,466,201 | T→C | 6.0% | pseudogene (810/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,466,336 | C→G | 5.6% | pseudogene (945/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,466,438 | T→G | 6.1% | pseudogene (1047/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,466,639 | C→T | 7.9% | pseudogene (1248/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,708,709 | T→A | 6.2% | R597R (CGT→CGA) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,708,805 | T→A | 11.2% | R629R (CGT→CGA) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,708,814 | A→T | 11.2% | A632A (GCA→GCT) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,795,228 | G→C | 5.1% | intergenic (‑76/+25) | btuC ← / ← ihfA | vitamin B12 ABC transporter permease/integration host factor (IHF), DNA‑binding protein, alpha subunit |
| RA | 1,829,322 | A→C | 5.1% | L138R (CTG→CGG) | astD ← | succinylglutamic semialdehyde dehydrogenase |
| RA | 1,829,328 | C→G | 5.0% | G136A (GGC→GCC) | astD ← | succinylglutamic semialdehyde dehydrogenase |
| RA | 1,864,763 | A→T | 6.3% | intergenic (+29/+19) | yeaD → / ← yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| RA | 1,932,094 | C→G | 6.3% | intergenic (+35/+21) | purT → / ← eda | phosphoribosylglycinamide formyltransferase 2/KHG/KDPG aldolase; 2‑dehydro‑3‑deoxy‑phosphogluconate/4‑hydroxy‑2‑ oxoglutarate aldolase |
| RA | 1,932,095 | T→A | 6.1% | intergenic (+36/+20) | purT → / ← eda | phosphoribosylglycinamide formyltransferase 2/KHG/KDPG aldolase; 2‑dehydro‑3‑deoxy‑phosphogluconate/4‑hydroxy‑2‑ oxoglutarate aldolase |
| RA | 1,932,096 | C→G | 6.3% | intergenic (+37/+19) | purT → / ← eda | phosphoribosylglycinamide formyltransferase 2/KHG/KDPG aldolase; 2‑dehydro‑3‑deoxy‑phosphogluconate/4‑hydroxy‑2‑ oxoglutarate aldolase |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| JC JC | 1,979,486 | IS5 (+) +4 bp | 100% | intergenic (‑271/‑264) | insA ← / → uspC | IS1 repressor TnpA/universal stress protein |
| RA | 2,009,731 | A→G | 5.5% | intergenic (+19/‑90) | yedF → / → yedK | putative TusA family sulfurtransferase/DUF159 family protein |
| RA | 2,009,732 | C→G | 5.5% | intergenic (+20/‑89) | yedF → / → yedK | putative TusA family sulfurtransferase/DUF159 family protein |
| RA | 2,009,733 | C→T | 5.5% | intergenic (+21/‑88) | yedF → / → yedK | putative TusA family sulfurtransferase/DUF159 family protein |
| RA | 2,074,691 | C→G | 6.5% | intergenic (+33/‑88) | flu → / → yeeR | CP4‑44 prophage; antigen 43 (Ag43) phase‑variable biofilm formation autotransporter/CP4‑44 prophage; putative membrane protein |
| RA | 2,079,004 | G→C | 5.5% | intergenic (+73/+28) | yoeF → / ← yeeX | pseudogene, CP4‑44 putative prophage remnant;Phage or Prophage Related/UPF0265 family protein |
| RA | 2,173,361 | Δ2 bp | 100% | pseudogene (1‑2/442 nt) | gatC ← | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 2,177,234 | C→A | 10.1% | intergenic (‑30/+278) | gatY ← / ← fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| RA | 2,177,245 | G→T | 10.7% | intergenic (‑41/+267) | gatY ← / ← fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| RA | 2,282,830 | T→C | 5.0% | intergenic (+29/+110) | rplY → / ← yejK | 50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein |
| RA | 2,282,832 | C→G | 5.3% | intergenic (+31/+108) | rplY → / ← yejK | 50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein |
| RA | 2,282,833 | G→A | 5.1% | intergenic (+32/+107) | rplY → / ← yejK | 50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein |
| RA | 2,304,649 | C→T | 13.5% | intergenic (+256/+459) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,305,013 | A→G | 5.8% | intergenic (+620/+95) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,375,483 | A→T | 5.1% | L160L (CTT→CTA) ‡ | menC ← | O‑succinylbenzoyl‑CoA synthase |
| RA | 2,375,484 | A→T | 5.1% | L160H (CTT→CAT) ‡ | menC ← | O‑succinylbenzoyl‑CoA synthase |
| RA | 2,432,985 | A→G | 5.2% | intergenic (‑43/+27) | folC ← / ← accD | bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit |
| RA | 2,432,990 | G→C | 5.4% | intergenic (‑48/+22) | folC ← / ← accD | bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit |
| RA | 2,639,309 | G→C | 7.2% | L423V (CTG→GTG) | hisS ← | histidyl tRNA synthetase |
| RA | 2,725,850 | T→A | 6.0% | intergenic (‑104/+219) | kgtP ← / ← rrfG | alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon |
| RA | 2,807,091 | T→C | 5.1% | intergenic (+17/‑41) | proW → / → proX | glycine betaine/proline ABC transporter permease/glycine betaine/proline ABC transporter periplasmic binding protein; cold shock protein |
| RA | 2,807,095 | G→A | 5.1% | intergenic (+21/‑37) | proW → / → proX | glycine betaine/proline ABC transporter permease/glycine betaine/proline ABC transporter periplasmic binding protein; cold shock protein |
| RA | 3,020,510 | G→T | 5.1% | intergenic (+21/‑30) | ssnA → / → ygfM | putative chlorohydrolase/aminohydrolase/putative oxidoreductase |
| RA | 3,020,511 | C→G | 5.3% | intergenic (+22/‑29) | ssnA → / → ygfM | putative chlorohydrolase/aminohydrolase/putative oxidoreductase |
| RA | 3,020,512 | A→C | 5.3% | intergenic (+23/‑28) | ssnA → / → ygfM | putative chlorohydrolase/aminohydrolase/putative oxidoreductase |
| RA | 3,082,702 | A→C | 5.1% | intergenic (+31/+175) | loiP → / ← speB | Phe‑Phe periplasmic metalloprotease, OM lipoprotein; low salt‑inducible; Era‑binding heat shock protein/agmatinase |
| RA | 3,082,708 | T→G | 5.4% | intergenic (+37/+169) | loiP → / ← speB | Phe‑Phe periplasmic metalloprotease, OM lipoprotein; low salt‑inducible; Era‑binding heat shock protein/agmatinase |
| RA | 3,082,709 | C→A | 5.0% | intergenic (+38/+168) | loiP → / ← speB | Phe‑Phe periplasmic metalloprotease, OM lipoprotein; low salt‑inducible; Era‑binding heat shock protein/agmatinase |
| RA | 3,107,876 | A→C | 5.1% | I427S (ATT→AGT) | speC ← | ornithine decarboxylase, constitutive |
| RA | 3,239,609 | T→G | 14.3% | intergenic (+64/‑335) | alx → / → sstT | putative membrane‑bound redox modulator/sodium:serine/threonine symporter |
| RA | 3,239,610 | C→G | 9.0% | intergenic (+65/‑334) | alx → / → sstT | putative membrane‑bound redox modulator/sodium:serine/threonine symporter |
| RA | 3,239,611 | C→A | 9.1% | intergenic (+66/‑333) | alx → / → sstT | putative membrane‑bound redox modulator/sodium:serine/threonine symporter |
| RA | 3,269,956 | T→C | 8.2% | intergenic (+354/+260) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,270,080 | C→T | 7.2% | intergenic (+478/+136) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,270,081 | G→T | 7.0% | intergenic (+479/+135) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,270,082 | A→C | 8.6% | intergenic (+480/+134) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,270,083 | A→G | 7.7% | intergenic (+481/+133) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,270,143 | C→T | 5.4% | intergenic (+541/+73) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,334,704 | G→C | 7.1% | intergenic (+23/‑205) | ispB → / → sfsB | octaprenyl diphosphate synthase/malPQ operon transcriptional activator |
| RA | 3,334,705 | C→T | 6.3% | intergenic (+24/‑204) | ispB → / → sfsB | octaprenyl diphosphate synthase/malPQ operon transcriptional activator |
| RA | 3,423,531 | T→G | 5.0% | noncoding (12/120 nt) | rrfF ← | 5S ribosomal RNA of rrnD operon |
| RA | 3,458,110 | C→A | 100% | T578T (ACC→ACA) | gspD → | general secretory pathway component, cryptic |
| RA | 3,482,325 | G→A | 100% | R346H (CGC→CAC) | yheS → | ABC‑F family protein predicted regulatory ATPase |
| RA | 3,512,578 | A→G | 5.3% | intergenic (‑234/+56) | yhfZ ← / ← trpS | putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase |
| RA | 3,512,579 | A→C | 5.3% | intergenic (‑235/+55) | yhfZ ← / ← trpS | putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase |
| RA | 3,512,585 | T→G | 5.7% | intergenic (‑241/+49) | yhfZ ← / ← trpS | putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase |
| RA | 3,512,586 | C→A | 5.0% | intergenic (‑242/+48) | yhfZ ← / ← trpS | putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase |
| RA | 3,560,455:1 | +G | 100% | intergenic (‑2/+1) | glpR ← / ← glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| RA | 3,608,695 | C→G | 8.5% | intergenic (+46/+56) | zntA → / ← tusA | zinc, cobalt and lead efflux system/mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase |
| RA | 3,608,696 | T→G | 5.2% | intergenic (+47/+55) | zntA → / ← tusA | zinc, cobalt and lead efflux system/mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase |
| RA | 3,608,721 | A→C | 8.9% | intergenic (+72/+30) | zntA → / ← tusA | zinc, cobalt and lead efflux system/mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase |
| RA | 3,728,125 | T→G | 6.7% | Y416S (TAC→TCC) | xylB ← | xylulokinase |
| RA | 3,781,022 | T→G | 8.2% | intergenic (+5/‑193) | lldD → / → trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| MC JC | 3,815,859 | Δ82 bp | 100% | [rph]–[rph] | [rph], [rph] | |
| RA | 3,908,506 | C→G | 5.2% | intergenic (‑140/+43) | pstB ← / ← pstA | phosphate ABC transporter ATPase/phosphate ABC transporter permease |
| RA | 3,959,480 | A→T | 7.1% | intergenic (+35/+52) | ilvC → / ← ppiC | ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C) |
| RA | 3,959,481 | C→G | 6.9% | intergenic (+36/+51) | ilvC → / ← ppiC | ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C) |
| RA | 3,959,515 | T→A | 7.5% | intergenic (+70/+17) | ilvC → / ← ppiC | ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C) |
| RA | 3,966,876 | A→C | 5.2% | T154P (ACT→CCT) | rho → | transcription termination factor |
| RA | 3,967,449 | C→T | 6.2% | L345F (CTC→TTC) | rho → | transcription termination factor |
| RA | 3,967,552 | A→T | 5.0% | K379I (AAA→ATA) | rho → | transcription termination factor |
| RA | 4,060,261 | G→T | 5.1% | intergenic (+31/‑186) | typA → / → yihL | GTP‑binding protein/putative DNA‑binding transcriptional regulator |
| RA | 4,060,264 | A→C | 5.6% | intergenic (+34/‑183) | typA → / → yihL | GTP‑binding protein/putative DNA‑binding transcriptional regulator |
| RA | 4,153,447 | A→G | 7.6% | intergenic (‑349/+249) | ppc ← / ← argE | phosphoenolpyruvate carboxylase/acetylornithine deacetylase |
| RA | 4,178,247 | A→C | 5.1% | T169P (ACC→CCC) | nusG → | transcription termination factor |
| RA | 4,189,448 | C→T | 20.9% | Q1367* (CAG→TAG) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,189,524 | Δ1 bp | 5.2% | coding (4175/4224 nt) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,291,512 | G→A | 5.2% | M1M (GTG→ATG) †‡ | nrfE → | heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfE |
| RA | 4,291,513 | T→C | 5.2% | M1A (GTG→GCG) †‡ | nrfE → | heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfE |
| RA | 4,296,060 | C→T | 32.6% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,155 | T→A | 11.1% | intergenic (+361/+281) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,380:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,397 | T→C | 8.9% | intergenic (+603/+39) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,297,196 | A→C | 5.2% | intergenic (‑71/+23) | yjcO ← / ← fdhF | Sel1 family TPR‑like repeat protein/formate dehydrogenase‑H, selenopolypeptide subunit |
| RA | 4,326,047 | C→T | 6.2% | intergenic (‑306/+352) | yjdN ← / ← yjdM | metalloprotein superfamily protein/zinc‑ribbon family protein |
| RA | 4,326,088 | T→G | 5.5% | intergenic (‑347/+311) | yjdN ← / ← yjdM | metalloprotein superfamily protein/zinc‑ribbon family protein |
| RA | 4,335,654 | T→A | 6.5% | intergenic (‑64/+40) | eptA ← / ← adiC | lipid A phosphoethanolamine transferase/arginine:agmatine antiporter |
| RA | 4,335,655 | T→A | 6.2% | intergenic (‑65/+39) | eptA ← / ← adiC | lipid A phosphoethanolamine transferase/arginine:agmatine antiporter |
| RA | 4,336,979 | A→C | 5.1% | M18R (ATG→AGG) | adiC ← | arginine:agmatine antiporter |
| RA | 4,336,988 | A→T | 5.1% | V15D (GTC→GAC) | adiC ← | arginine:agmatine antiporter |
| RA | 4,366,854 | T→G | 5.9% | intergenic (‑81/+37) | dcuA ← / ← aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| RA | 4,473,927 | C→A | 100% | A43S (GCC→TCC) | bdcA ← | c‑di‑GMP‑binding biofilm dispersal mediator protein |
| RA | 4,479,012 | A→T | 6.0% | intergenic (+123/+22) | rraB → / ← yjgM | protein inhibitor of RNase E/GNAT family putative N‑acetyltransferase |
| RA | 4,479,016 | G→C | 5.7% | intergenic (+127/+18) | rraB → / ← yjgM | protein inhibitor of RNase E/GNAT family putative N‑acetyltransferase |
| RA | 4,479,020 | A→T | 6.0% | intergenic (+131/+14) | rraB → / ← yjgM | protein inhibitor of RNase E/GNAT family putative N‑acetyltransferase |
| RA | 4,638,690 | C→T | 5.2% | G171G (GGC→GGT) | creD → | inner membrane protein |
| RA | 4,638,691 | A→G | 5.1% | T172A (ACC→GCC) | creD → | inner membrane protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 448594 | 450722 | 2129 | 139 [137] | [136] 141 | [cyoC]–[cyoA] | [cyoC],cyoB,[cyoA] |
| * | * | ÷ | NC_000913 | 1166027 | 1167451 | 1425 | 141 [138] | [138] 139 | ndh | ndh |
| * | * | ÷ | NC_000913 | 3423716–3424234 | 3424567–3424238 | 5–852 | 141 [137] | [138] 139 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 225154 = | NA (NA) | 13 (0.050) | 8/268 | NT | NA | noncoding (1384/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 225176 = | NA (NA) | noncoding (1406/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 258469 = | NA (NA) | 7 (0.030) | 3/260 | NT | 15.1% | noncoding (207/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 291289 = | 42 (0.170) | noncoding (113/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | 274620 = | NA (NA) | 9 (0.040) | 3/260 | NT | NA | noncoding (530/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274663 = | NA (NA) | noncoding (487/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 274695 | NA (NA) | 5 (0.020) | 3/270 | NT | NA | noncoding (455/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 274727 | NA (NA) | noncoding (423/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 381669 | NA (NA) | 8 (0.030) | 6/264 | NT | NA | noncoding (410/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381695 | NA (NA) | noncoding (436/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 781577 = | 95 (0.380) | 60 (0.250) +GAAG |
11/270 | NT | 30.7% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 184 (0.740) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 1207790 = | 86 (0.350) | 123 (0.560) | 61/246 | NT | 56.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 113 (0.510) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 81 (0.330) | 162 (0.740) | 71/246 | NT | 63.7% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 113 (0.510) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1287084 | 140 (0.560) | 11 (0.050) | 6/238 | NT | 8.1% | noncoding (153/171 nt) | rttR | rtT sRNA, processed from tyrT transcript |
| ? | NC_000913 | 1287557 = | 130 (0.610) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 194 (0.800) | 92/270 | NT | 100% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 2700568 | 175 (0.700) | 11 (0.050) | 7/240 | NT | 6.5% | noncoding (49/77 nt) | ohsC | sRNA antisense regulator of shoB toxin |
| ? | NC_000913 | = 2700581 | 168 (0.780) | noncoding (62/77 nt) | ohsC | sRNA antisense regulator of shoB toxin | |||||
| * | ? | NC_000913 | 2729443 = | 109 (0.440) | 7 (0.030) | 3/258 | NT | 5.5% | noncoding (2/76 nt) | gltW | tRNA‑Glu |
| ? | NC_000913 | 2729485 = | 138 (0.600) | intergenic (‑41/+131) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 2817942 | 192 (0.770) | 9 (0.040) | 6/238 | NT | 5.2% | intergenic (‑82/+117) | argQ/argZ | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818492 = | 166 (0.780) | noncoding (58/77 nt) | argV | tRNA‑Arg | |||||
| * | ? | NC_000913 | = 3392102 | 290 (1.170) | 15 (0.080) | 15/212 | NT | 6.0% | noncoding (27/308 nt) | REP245 (repetitive extragenic palindromic) element; contains 7 REP sequences | REP245 (repetitive extragenic palindromic) element; contains 7 REP sequences |
| ? | NC_000913 | 3392377 = | 252 (1.330) | noncoding (302/308 nt) | REP245 (repetitive extragenic palindromic) element; contains 7 REP sequences | REP245 (repetitive extragenic palindromic) element; contains 7 REP sequences | |||||
| * | ? | NC_000913 | 4542682 = | 208 (0.840) | 31 (0.130) | 21/260 | NT | 13.3% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 208 (0.890) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 4542690 | 216 (0.870) | 39 (0.170) | 26/260 | NT | 16.0% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 208 (0.890) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||