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 | 151,519 | A→C | 5.3% | I27M (ATT→ATG) | yadK ← | putative fimbrial‑like adhesin protein |
| RA | 164,581 | A→C | 20.5% | intergenic (+47/‑149) | hrpB → / → mrcB | putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase |
| RA | 238,523 | G→T | 6.7% | L72I (CTT→ATT) | ykfM ← | lethality reduction protein, putative inner membrane protein |
| RA | 238,535 | G→T | 5.9% | H68N (CAT→AAT) | ykfM ← | lethality reduction protein, putative inner membrane protein |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 339,886 | A→G | 5.6% | intergenic (+143/‑279) | yahG → / → yahI | DUF1116 family protein/carbamate kinase‑like protein |
| RA | 349,717 | T→C | 5.1% | intergenic (+145/‑295) | prpB → / → prpC | 2‑methylisocitrate lyase/2‑methylcitrate synthase |
| RA | 357,775 | A→T | 9.2% | intergenic (+321/+16) | codA → / ← cynR | cytosine/isoguanine deaminase/transcriptional activator of cyn operon; autorepressor |
| RA | 357,778 | C→T | 8.0% | intergenic (+324/+13) | codA → / ← cynR | cytosine/isoguanine deaminase/transcriptional activator of cyn operon; autorepressor |
| RA | 443,022 | G→A | 7.5% | intergenic (+25/+29) | thiI → / ← yajL | tRNA s(4)U8 sulfurtransferase/oxidative‑stress‑resistance chaperone |
| RA | 443,023 | T→C | 7.5% | intergenic (+26/+28) | thiI → / ← yajL | tRNA s(4)U8 sulfurtransferase/oxidative‑stress‑resistance chaperone |
| RA | 543,091 | G→C | 5.9% | intergenic (+58/+170) | glxK → / ← allE | glycerate kinase II/S‑ureidoglycine aminohydrolase |
| RA | 543,094 | G→C | 6.2% | intergenic (+61/+167) | glxK → / ← allE | glycerate kinase II/S‑ureidoglycine aminohydrolase |
| RA | 569,160 | G→T | 5.4% | D87Y (GAC→TAC) ‡ | ybcK → | DLP12 prophage; putative recombinase |
| RA | 569,161 | A→C | 5.1% | D87A (GAC→GCC) ‡ | ybcK → | DLP12 prophage; putative recombinase |
| RA | 624,584 | G→T | 5.2% | intergenic (‑74/‑301) | fepB ← / → entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| RA | 624,589 | T→A | 5.4% | intergenic (‑79/‑296) | fepB ← / → entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| RA | 624,590 | T→A | 5.4% | intergenic (‑80/‑295) | fepB ← / → entC | ferrienterobactin ABC transporter periplasmic binding protein/isochorismate synthase 1 |
| RA | 710,170 | C→T | 5.7% | intergenic (+54/+30) | chiQ → / ← fur | chitosugar‑induced verified lipoprotein/ferric iron uptake regulon transcriptional repressor; autorepressor |
| RA | 710,173 | A→G | 6.2% | intergenic (+57/+27) | chiQ → / ← fur | chitosugar‑induced verified lipoprotein/ferric iron uptake regulon transcriptional repressor; autorepressor |
| RA | 775,627 | G→A | 5.1% | V159I (GTA→ATA) | tolQ → | membrane spanning protein in TolA‑TolQ‑TolR complex |
| RA | 781,061 | C→T | 5.9% | intergenic (+143/‑7) | lysW → / → valZ | tRNA‑Lys/tRNA‑Val |
| RA | 1,018,983 | A→T | 5.8% | intergenic (+46/+30) | matP → / ← ompA | Ter macrodomain organizer matS‑binding protein/outer membrane protein A (3a;II*;G;d) |
| RA | 1,018,986 | A→T | 6.1% | intergenic (+49/+27) | matP → / ← ompA | Ter macrodomain organizer matS‑binding protein/outer membrane protein A (3a;II*;G;d) |
| RA | 1,151,888 | T→G | 10.7% | intergenic (+37/‑51) | acpP → / → fabF | acyl carrier protein (ACP)/3‑oxoacyl‑[acyl‑carrier‑protein] synthase II |
| RA | 1,287,122 | T→G | 9.4% | noncoding (115/171 nt) R19R (AGG→CGG) |
rttR ← tpr ← |
rtT sRNA, processed from tyrT transcript protamine‑like protein |
| JC JC | 1,292,997 | IS1 (+) +9 bp | 51.6% | intergenic (‑75/‑522) | hns ← / → tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase |
| JC JC | 1,292,997 | IS2 (–) +5 bp | 13.2% | intergenic (‑75/‑526) | hns ← / → tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase |
| JC JC | 1,293,015 | IS1 (–) +8 bp | 24.4% | intergenic (‑93/‑505) | hns ← / → tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase |
| JC JC | 1,293,015 | IS1 (+) +20 bp | 61.0% | intergenic (‑93/‑493) | hns ← / → tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase |
| JC JC | 1,293,023 | IS1 (+) Δ3 bp | 57.1% | intergenic (‑101/‑502) | hns ← / → tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase |
| MC JC | 1,299,499 | Δ1,199 bp | 100% | intergenic (+254/‑485) | ychE → / → oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,351,228 | G→C | 10.6% | intergenic (‑189/+179) | fabI ← / ← ycjD | enoyl‑[acyl‑carrier‑protein] reductase, NADH‑dependent/DUF559 family endonuclease‑related protein |
| RA | 1,351,229 | A→T | 5.6% | intergenic (‑190/+178) | fabI ← / ← ycjD | enoyl‑[acyl‑carrier‑protein] reductase, NADH‑dependent/DUF559 family endonuclease‑related protein |
| JC JC | 1,421,597 | IS5 (+) +4 bp | 5.9% | coding (479‑482/858 nt) | ydaU → | Rac prophage; conserved protein |
| RA | 1,466,345 | T→C | 8.1% | pseudogene (954/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,466,438 | T→G | 7.2% | pseudogene (1047/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,466,495 | C→T | 8.0% | pseudogene (1104/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,466,504 | A→G | 7.9% | pseudogene (1113/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,466,604 | G→A | 6.8% | pseudogene (1213/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,708,709 | T→A | 8.8% | R597R (CGT→CGA) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,708,751 | A→G | 5.1% | E611E (GAA→GAG) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,708,805 | T→A | 10.1% | 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 | 9.5% | A632A (GCA→GCT) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,864,758 | G→A | 7.0% | intergenic (+24/+24) | yeaD → / ← yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| RA | 1,864,763 | A→T | 7.4% | intergenic (+29/+19) | yeaD → / ← yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| RA | 1,864,768 | T→C | 8.7% | intergenic (+34/+14) | yeaD → / ← yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| 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 | 2,090,126 | C→T | 5.0% | intergenic (+80/‑66) | hisL → / → hisG | his operon leader peptide/ATP phosphoribosyltransferase |
| 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 | 14.5% | 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 | 11.8% | intergenic (‑41/+267) | gatY ← / ← fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| RA | 2,229,177 | A→C | 17.4% | intergenic (+112/+261) | yohP → / ← dusC | uncharacterized protein/tRNA‑dihydrouridine synthase C |
| RA | 2,270,602 | T→C | 6.7% | intergenic (+57/‑124) | mepS → / → rtn | murein DD‑endopeptidase, space‑maker hydrolase, mutational suppressor of prc thermosensitivity, outer membrane lipoprotein, weak murein LD‑carboxypeptidase/resistance protein for phages lambda and N4, putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase |
| RA | 2,270,605 | G→A | 6.7% | intergenic (+60/‑121) | mepS → / → rtn | murein DD‑endopeptidase, space‑maker hydrolase, mutational suppressor of prc thermosensitivity, outer membrane lipoprotein, weak murein LD‑carboxypeptidase/resistance protein for phages lambda and N4, putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase |
| RA | 2,304,649 | C→T | 16.7% | intergenic (+256/+459) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,305,085 | A→G | 6.3% | intergenic (+692/+23) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,305,086 | C→G | 6.3% | intergenic (+693/+22) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,305,087 | C→T | 6.2% | intergenic (+694/+21) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,352,503 | T→A | 5.2% | intergenic (‑129/‑144) | glpT ← / → glpA | sn‑glycerol‑3‑phosphate transporter/anaerobic sn‑glycerol‑3‑phosphate dehydrogenase, large FAD/NAD(P)‑binding subunit |
| RA | 2,460,596 | G→C | 12.0% | intergenic (‑127/+54) | fadI ← / ← yfcZ | beta‑ketoacyl‑CoA thiolase, anaerobic, subunit/UPF0381 family protein |
| RA | 2,470,427 | C→A | 19.2% | Q433K (CAA→AAA) | gtrS → | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| RA | 2,663,474 | A→C | 5.1% | A11A (GCA→GCC) | suhB → | inositol monophosphatase |
| RA | 2,778,123 | G→T | 5.4% | intergenic (+341/+23) | ypjF → / ← ypjA | CP4‑57 prophage; toxin of the YpjF‑YfjZ toxin‑antitoxin system/adhesin‑like autotransporter |
| RA | 2,778,124 | A→C | 6.4% | intergenic (+342/+22) | ypjF → / ← ypjA | CP4‑57 prophage; toxin of the YpjF‑YfjZ toxin‑antitoxin system/adhesin‑like autotransporter |
| RA | 2,788,674 | A→T | 5.3% | intergenic (+25/‑311) | ygaQ → / → csiD | uncharacterized protein; putative enzyme/carbon starvation protein |
| RA | 2,788,676 | A→T | 5.6% | intergenic (+27/‑309) | ygaQ → / → csiD | uncharacterized protein; putative enzyme/carbon starvation protein |
| RA | 2,817,916 | T→G | 5.1% | intergenic (‑56/+143) | argQ ← / ← argZ | tRNA‑Arg/tRNA‑Arg |
| RA | 2,818,046 | A→G | 7.8% | intergenic (‑186/+13) | argQ ← / ← argZ | tRNA‑Arg/tRNA‑Arg |
| RA | 2,818,049 | T→A | 7.9% | intergenic (‑189/+10) | argQ ← / ← argZ | tRNA‑Arg/tRNA‑Arg |
| RA | 2,828,535 | T→A | 5.7% | intergenic (+19/‑86) | srlD → / → srlM | sorbitol‑6‑phosphate dehydrogenase/sorbitol=responsive srl operon transcriptional activator |
| RA | 2,828,537 | A→T | 6.1% | intergenic (+21/‑84) | srlD → / → srlM | sorbitol‑6‑phosphate dehydrogenase/sorbitol=responsive srl operon transcriptional activator |
| RA | 2,965,126 | T→A | 10.0% | K10N (AAA→AAT) | thyA ← | thymidylate synthetase |
| RA | 2,976,321 | C→A | 5.3% | noncoding (65/82 nt) | omrB ← | sRNA antisense regulator downregulates OM proteins and curli; positively regulated by OmpR/EnvZ, Hfq‑dependent |
| RA | 3,054,888 | A→T | 8.1% | V186E (GTA→GAA) | ygfB ← | UPF0149 family protein |
| RA | 3,067,320 | A→T | 5.7% | intergenic (‑147/+20) | ygfI ← / ← yggE | putative DNA‑binding transcriptional regulator/oxidative stress defense protein |
| RA | 3,067,323 | A→T | 5.4% | intergenic (‑150/+17) | ygfI ← / ← yggE | putative DNA‑binding transcriptional regulator/oxidative stress defense protein |
| RA | 3,156,590 | C→A | 5.0% | intergenic (+72/‑33) | yqhD → / → dkgA | aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A |
| RA | 3,156,591 | T→G | 5.7% | intergenic (+73/‑32) | yqhD → / → dkgA | aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A |
| RA | 3,183,345:1 | +T | 6.7% | intergenic (+22/+468) | zupT → / ← ribB | zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase |
| RA | 3,183,350 | Δ1 bp | 6.6% | intergenic (+27/+463) | zupT → / ← ribB | zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase |
| RA | 3,234,506 | G→A | 6.1% | intergenic (‑51/+233) | higB ← / ← rlmG | mRNA interferase toxin of the HigB‑HigA toxin‑antitoxin system/23S rRNA m(2)G1835 methyltransferase, SAM‑dependent |
| RA | 3,234,507 | A→T | 6.0% | intergenic (‑52/+232) | higB ← / ← rlmG | mRNA interferase toxin of the HigB‑HigA toxin‑antitoxin system/23S rRNA m(2)G1835 methyltransferase, SAM‑dependent |
| RA | 3,234,508 | T→C | 6.6% | intergenic (‑53/+231) | higB ← / ← rlmG | mRNA interferase toxin of the HigB‑HigA toxin‑antitoxin system/23S rRNA m(2)G1835 methyltransferase, SAM‑dependent |
| RA | 3,269,967 | C→T | 6.2% | intergenic (+365/+249) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,269,968 | G→T | 6.0% | intergenic (+366/+248) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,269,969 | A→C | 9.8% | intergenic (+367/+247) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,269,970 | A→G | 6.3% | intergenic (+368/+246) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,291,110 | A→T | 5.1% | K766I (AAA→ATA) | yraJ → | putative outer membrane protein |
| RA | 3,392,212 | C→G | 5.0% | intergenic (‑184/+246) | tldD ← / ← yhdP | putative peptidase/DUF3971‑AsmA2 domains protein |
| RA | 3,423,396 | T→G | 5.7% | intergenic (+202/+27) | yhdZ → / ← rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| RA | 3,423,405 | A→G | 5.4% | intergenic (+211/+18) | yhdZ → / ← rrfF | putative amino acid ABC transporter ATPase/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 | 3,504,873 | T→A | 18.1% | intergenic (+90/+62) | frlR → / ← yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| RA | 3,504,880 | A→C | 7.7% | intergenic (+97/+55) | frlR → / ← yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| RA | 3,539,815 | A→T | 5.3% | intergenic (+109/‑348) | yhgF → / → feoA | putative transcriptional accessory protein/ferrous iron transporter, protein A |
| RA | 3,539,816 | T→A | 5.0% | intergenic (+110/‑347) | yhgF → / → feoA | putative transcriptional accessory protein/ferrous iron transporter, protein A |
| RA | 3,539,817 | A→T | 5.3% | intergenic (+111/‑346) | yhgF → / → feoA | putative transcriptional accessory protein/ferrous iron transporter, protein A |
| RA | 3,539,827 | T→C | 5.2% | intergenic (+121/‑336) | yhgF → / → feoA | putative transcriptional accessory protein/ferrous iron transporter, protein A |
| 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 | 3,708,427 | G→A | 5.2% | intergenic (‑722/+189) | dppA ← / ← proK | dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro |
| RA | 3,708,428 | T→A | 5.5% | intergenic (‑723/+188) | dppA ← / ← proK | dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro |
| RA | 3,708,429 | T→C | 5.3% | intergenic (‑724/+187) | dppA ← / ← proK | dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro |
| RA | 3,708,597 | T→C | 5.3% | intergenic (‑892/+19) | dppA ← / ← proK | dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro |
| RA | 3,728,109 | A→C | 6.9% | D421E (GAT→GAG) | xylB ← | xylulokinase |
| RA | 3,781,047 | C→A | 6.9% | intergenic (+30/‑168) | lldD → / → trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| RA | 3,781,138 | A→C | 6.2% | intergenic (+121/‑77) | 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 | 3,937,143 | A→T | 5.6% | D289V (GAT→GTT) | rbsB → | D‑ribose ABC transporter periplasmic binding protein; ribose chemotaxis receptor |
| RA | 3,959,457 | T→G | 7.2% | intergenic (+12/+75) | ilvC → / ← ppiC | ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C) |
| RA | 3,959,515 | T→A | 9.3% | intergenic (+70/+17) | ilvC → / ← ppiC | ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C) |
| RA | 4,277,944 | G→T | 5.1% | noncoding (123/140 nt) | ryjA ← | novel sRNA, function unknown |
| RA | 4,296,060 | C→T | 29.2% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,155 | T→C | 7.3% | 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 | 4,314,227 | A→T | 5.6% | intergenic (+30/+117) | yjdP → / ← phnP | putative periplasmic protein/5‑phospho‑alpha‑D‑ribosyl 1,2‑cyclic phosphate phosphodiesterase |
| RA | 4,314,233 | A→T | 6.0% | intergenic (+36/+111) | yjdP → / ← phnP | putative periplasmic protein/5‑phospho‑alpha‑D‑ribosyl 1,2‑cyclic phosphate phosphodiesterase |
| RA | 4,412,848 | T→G | 5.1% | G154G (GGT→GGG) | yjfM → | DUF1190 family protein |
| RA | 4,470,951 | A→C | 5.0% | intergenic (‑38/+35) | ridA ← / ← pyrI | enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit |
| RA | 4,470,952 | T→C | 5.0% | intergenic (‑39/+34) | ridA ← / ← pyrI | enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit |
| RA | 4,473,927 | C→A | 100% | A43S (GCC→TCC) | bdcA ← | c‑di‑GMP‑binding biofilm dispersal mediator protein |
| RA | 4,520,500 | Δ1 bp | 6.2% | intergenic (‑176/+171) | yjhU ← / ← yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| RA | 4,520,504:1 | +T | 6.2% | intergenic (‑180/+167) | yjhU ← / ← yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| RA | 4,591,858 | A→C | 14.1% | N68H (AAC→CAC) | tsr → | methyl‑accepting chemotaxis protein I, serine sensor receptor |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 448601 | 450700 | 2100 | 137 [134] | [133] 139 | [cyoC]–[cyoA] | [cyoC],cyoB,[cyoA] |
| * | * | ÷ | NC_000913 | 2403920 | 2404658 | 739 | 136 [128] | [135] 138 | nuoB–[nuoA] | nuoB,[nuoA] |
| * | * | ÷ | NC_000913 | 3423723–3424234 | 3424547–3424238 | 5–825 | 138 [126] | [134] 136 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 224581 | NA (NA) | 9 (0.040) | 4/264 | NT | NA | noncoding (811/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 224615 | NA (NA) | noncoding (845/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 258675 | NA (NA) | 5 (0.020) | 3/278 | NT | 7.6% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 1292997 = | 61 (0.240) | intergenic (‑75/‑530) | hns/tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase | |||||
| * | ? | NC_000913 | 274384 = | NA (NA) | 4 (0.020) | 3/272 | NT | NA | noncoding (766/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274422 = | NA (NA) | noncoding (728/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 781369 = | 203 (0.790) | 21 (0.080) +GAAG |
13/270 | NT | 10.4% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 171 (0.660) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 1207790 = | 93 (0.360) | 132 (0.580) | 71/246 | NT | 61.4% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 84 (0.370) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 92 (0.360) | 138 (0.610) | 70/246 | NT | 62.5% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 84 (0.370) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1293009 | 43 (0.170) | 4 (0.020) | 4/276 | NT | 8.5% | intergenic (‑87/‑518) | hns/tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase |
| ? | NC_000913 | 1299499 = | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 1293038 | 51 (0.200) | 8 (0.030) | 3/278 | NT | 13.6% | intergenic (‑116/‑489) | hns/tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase |
| ? | NC_000913 | = 1469240 | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 2304842 = | NA (NA) | 4 (0.020) | 3/264 | NT | NA | noncoding (426/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913 | = 2347327 | NA (NA) | noncoding (168/203 nt) | REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences | REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences | |||||
| * | ? | NC_000913 | = 2817942 | 209 (0.810) | 19 (0.090) | 12/238 | NT | 10.2% | intergenic (‑82/+117) | argQ/argZ | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818492 = | 156 (0.710) | noncoding (58/77 nt) | argV | tRNA‑Arg | |||||
| * | ? | NC_000913 | = 3676270 | NA (NA) | 8 (0.030) | 7/248 | NT | NA | noncoding (150/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site |
| ? | NC_000913 | = 3676271 | NA (NA) | noncoding (151/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 4168341 | 134 (0.520) | 9 (0.040) | 3/258 | NT | 7.1% | intergenic (+141/‑31) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu |
| ? | NC_000913 | = 4168363 | 112 (0.470) | intergenic (+163/‑9) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||