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 | 8,324 | G→T | 7.1% | P29P (CCG→CCT) | talB → | transaldolase B |
| RA | 13,330 | C→T | 9.1% | L390L (CTG→TTG) | dnaK → | chaperone Hsp70, with co‑chaperone DnaJ |
| RA | 18,154 | G→T | 6.9% | S222S (TCG→TCT) | nhaA → | sodium‑proton antiporter |
| RA | 35,587 | C→A | 6.2% | L192L (CTG→CTT) | caiD ← | carnitinyl‑CoA dehydratase |
| RA | 54,985 | C→A | 8.9% | A709S (GCT→TCT) | lptD ← | LPS assembly OM complex LptDE, beta‑barrel component |
| RA | 75,669 | C→A | 12.6% | W91L (TGG→TTG) | leuD ← | 3‑isopropylmalate dehydratase small subunit |
| RA | 169,076 | G→A | 7.2% | T376T (ACG→ACA) | fhuB → | fused iron‑hydroxamate transporter subunits of ABC superfamily: membrane components |
| RA | 212,588 | C→T | 9.3% | intergenic (+122/+78) | nlpE → / ← yaeF | lipoprotein involved with copper homeostasis and adhesion/putative lipoprotein |
| RA | 221,425 | T→C | 6.7% | noncoding (1168/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,430 | T→C | 6.9% | noncoding (1173/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,455 | G→A | 8.0% | noncoding (1198/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,464 | G→C | 9.5% | noncoding (1207/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,471 | C→T | 11.3% | noncoding (1214/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,476 | A→T | 11.1% | noncoding (1219/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 235,693 | A→G | 8.1% | pseudogene (101/273 nt) | yafF → | pseudogene, H repeat‑associated protein |
| RA | 243,980 | Δ1 bp | 8.3% | intergenic (+32/‑144) | yafL → / → rayT | putative lipoprotein and C40 family peptidase/RAYT REP element‑mobilizing transposase; TnpA(REP) |
| RA | 243,983 | G→C | 9.1% | intergenic (+35/‑141) | yafL → / → rayT | putative lipoprotein and C40 family peptidase/RAYT REP element‑mobilizing transposase; TnpA(REP) |
| RA | 243,985 | A→G | 9.5% | intergenic (+37/‑139) | yafL → / → rayT | putative lipoprotein and C40 family peptidase/RAYT REP element‑mobilizing transposase; TnpA(REP) |
| RA | 243,986 | C→T | 9.3% | intergenic (+38/‑138) | yafL → / → rayT | putative lipoprotein and C40 family peptidase/RAYT REP element‑mobilizing transposase; TnpA(REP) |
| RA | 243,990 | G→A | 9.1% | intergenic (+42/‑134) | yafL → / → rayT | putative lipoprotein and C40 family peptidase/RAYT REP element‑mobilizing transposase; TnpA(REP) |
| RA | 243,991 | G→A | 9.1% | intergenic (+43/‑133) | yafL → / → rayT | putative lipoprotein and C40 family peptidase/RAYT REP element‑mobilizing transposase; TnpA(REP) |
| RA | 243,996 | T→A | 8.7% | intergenic (+48/‑128) | yafL → / → rayT | putative lipoprotein and C40 family peptidase/RAYT REP element‑mobilizing transposase; TnpA(REP) |
| RA | 244,009 | G→A | 10.6% | intergenic (+61/‑115) | yafL → / → rayT | putative lipoprotein and C40 family peptidase/RAYT REP element‑mobilizing transposase; TnpA(REP) |
| RA | 249,913 | C→T | 13.0% | intergenic (+265/‑53) | yafP → / → ykfJ | putative acyl‑CoA transferase/pseudogene |
| RA | 249,918 | T→C | 13.6% | intergenic (+270/‑48) | yafP → / → ykfJ | putative acyl‑CoA transferase/pseudogene |
| RA | 249,924 | T→C | 16.0% | intergenic (+276/‑42) | yafP → / → ykfJ | putative acyl‑CoA transferase/pseudogene |
| RA | 252,331 | A→G | 9.3% | intergenic (‑128/‑133) | pepD ← / → gpt | aminoacyl‑histidine dipeptidase (peptidase D)/xanthine phosphoribosyltransferase; xanthine‑guanine phosphoribosyltransferase |
| RA | 263,285 | G→A | 9.2% | D144D (GAC→GAT) | yafZ ← | CP4‑6 prophage; conserved protein |
| RA | 263,324 | A→G | 7.8% | G131G (GGT→GGC) | yafZ ← | CP4‑6 prophage; conserved protein |
| RA | 263,333 | G→C | 8.2% | L128L (CTC→CTG) | yafZ ← | CP4‑6 prophage; conserved protein |
| RA | 263,336 | C→A | 6.3% | G127G (GGG→GGT) | yafZ ← | CP4‑6 prophage; conserved protein |
| RA | 264,330 | G→C | 11.4% | R114R (CGC→CGG) | ykfA ← | CP4‑6 prophage; putative GTP‑binding protein |
| RA | 264,333 | A→G | 11.7% | P113P (CCT→CCC) | ykfA ← | CP4‑6 prophage; putative GTP‑binding protein |
| RA | 267,720 | A→C | 5.4% | pseudogene (246/426 nt) | insN → | pseudogene, IS911 transposase A;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 267,732 | G→A | 7.8% | pseudogene (258/426 nt) | insN → | pseudogene, IS911 transposase A;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 296,269 | G→A | 7.7% | A126V (GCG→GTG) | paoC ← | PaoABC aldehyde oxidoreductase, Moco‑containing subunit |
| RA | 353,337 | C→T | 7.0% | intergenic (+172/+165) | codA → / ← cynR | cytosine/isoguanine deaminase/transcriptional activator of cyn operon; autorepressor |
| RA | 353,338 | C→A | 7.6% | intergenic (+173/+164) | codA → / ← cynR | cytosine/isoguanine deaminase/transcriptional activator of cyn operon; autorepressor |
| RA | 354,253 | C→T | 7.5% | R50H (CGT→CAT) | cynR ← | transcriptional activator of cyn operon; autorepressor |
| RA | 362,391 | C→A | 11.2% | W88L (TGG→TTG) | mhpR ← | mhp operon transcriptional activator |
| RA | 370,475 | Δ1 bp | 10.6% | intergenic (+138/‑440) | mhpE → / → mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| RA | 370,476 | T→G | 11.0% | intergenic (+139/‑439) | mhpE → / → mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| RA | 372,024 | C→A | 16.6% | V370V (GTC→GTA) | mhpT → | 3‑hydroxyphenylpropionic transporter |
| RA | 375,120 | C→A | 7.3% | R73L (CGC→CTC) | frmR ← | regulator protein that represses frmRAB operon |
| RA | 378,919 | G→A | 9.3% | P158L (CCG→CTG) | yaiP ← | putative family 2 glycosyltransferase |
| RA | 400,630 | C→G | 8.5% | A157A (GCG→GCC) | proC ← | pyrroline‑5‑carboxylate reductase, NAD(P)‑binding |
| RA | 418,160 | G→A | 5.5% | A63T (GCA→ACA) | malZ → | maltodextrin glucosidase |
| RA | 433,456 | G→T | 12.5% | R46S (CGT→AGT) | yajO ← | 2‑carboxybenzaldehyde reductase |
| RA | 438,966 | C→A | 10.9% | A44A (GCG→GCT) | yajL ← | oxidative‑stress‑resistance chaperone |
| RA | 443,826 | C→A | 8.5% | Q97H (CAG→CAT) | cyoC ← | cytochrome o ubiquinol oxidase subunit III |
| RA | 458,855 | T→C | 17.4% | A495A (GCT→GCC) | ppiD → | periplasmic folding chaperone, has an inactive PPIase domain |
| RA | 488,644 | C→A | 14.3% | P366H (CCT→CAT) | dnaX → | DNA polymerase III/DNA elongation factor III, tau and gamma subunits |
| RA | 493,003 | G→T | 8.1% | V125F (GTT→TTT) | adk → | adenylate kinase |
| RA | 504,265 | G→A | 7.5% | intergenic (+250/+66) | ybaQ → / ← copA | putative DNA‑binding transcriptional regulator/copper transporter |
| RA | 519,433 | C→T | 6.7% | D239D (GAC→GAT) | rhsD → | Rhs family putative polymorphic toxin |
| RA | 519,440 | G→T | 6.9% | G242W (GGG→TGG) | rhsD → | Rhs family putative polymorphic toxin |
| RA | 519,445 | G→T | 6.9% | R243R (CGG→CGT) | rhsD → | Rhs family putative polymorphic toxin |
| RA | 519,446 | G→C | 7.0% | E244Q (GAG→CAG) ‡ | rhsD → | Rhs family putative polymorphic toxin |
| RA | 519,448 | G→C | 6.2% | E244D (GAG→GAC) ‡ | rhsD → | Rhs family putative polymorphic toxin |
| RA | 519,454 | T→G | 7.3% | R246R (CGT→CGG) | rhsD → | Rhs family putative polymorphic toxin |
| RA | 519,460 | G→A | 5.9% | V248V (GTG→GTA) | rhsD → | Rhs family putative polymorphic toxin |
| RA | 520,661 | A→C | 11.6% | S649R (AGC→CGC) | rhsD → | Rhs family putative polymorphic toxin |
| RA | 573,883 | G→C | 13.7% | T107T (ACG→ACC) R34P (CGG→CCG) |
rzpD → rzoD → |
DLP12 prophage; putative murein endopeptidase DLP12 prophage; putative lipoprotein |
| RA | 577,420 | T→C | 10.3% | pseudogene (305/438 nt) | tfaD → | pseudogene, DLP12 prophage; tail fiber assembly protein family;Phage or Prophage Related |
| RA | 577,433 | C→T | 8.4% | pseudogene (318/438 nt) | tfaD → | pseudogene, DLP12 prophage; tail fiber assembly protein family;Phage or Prophage Related |
| RA | 581,599 | C→T | 10.3% | intergenic (+42/+4) | pauD → / ← envY | tRNA‑OTHER/porin thermoregulatory transcriptional activator |
| RA | 592,480 | C→T | 8.3% | intergenic (+51/‑107) | cusC → / → cusF | copper/silver efflux system, outer membrane component/periplasmic copper‑ and silver‑binding protein |
| RA | 600,610 | C→T | 9.3% | D91N (GAC→AAC) | nfsB ← | dihydropteridine reductase, NAD(P)H‑dependent, oxygen‑insensitive |
| RA | 607,002 | C→A | 12.0% | G317C (GGT→TGT) | fepA ← | iron‑enterobactin outer membrane transporter |
| RA | 649,171 | G→A | 14.3% | S494N (AGT→AAT) | citA → | sensory histidine kinase in two‑component regulatory system with CitB |
| RA | 693,233 | T→A | 14.3% | E467D (GAA→GAT) | asnB ← | asparagine synthetase B |
| RA | 720,641 | G→T | 10.0% | L618I (CTC→ATC) | kdpB ← | potassium translocating ATPase, subunit B |
| RA | 725,257 | T→C | 5.4% | I73I (ATT→ATC) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 725,992 | C→A | 8.0% | P318P (CCC→CCA) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 726,100 | A→G | 13.6% | R354R (CGA→CGG) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 726,110 | T→C | 14.3% | C358R (TGT→CGT) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 726,319 | G→C | 10.3% | A427A (GCG→GCC) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,315 | T→C | 5.5% | H759H (CAT→CAC) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,325 | A→G | 6.5% | N763D (AAT→GAT) ‡ | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,327 | T→A | 6.2% | N763K (AAT→AAA) ‡ | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,329 | A→C | 5.7% | E764A (GAA→GCA) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,369 | A→G | 10.5% | A777A (GCA→GCG) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,375 | A→G | 10.5% | G779G (GGA→GGG) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,989 | C→A | 8.0% | A984E (GCA→GAA) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 730,083 | G→A | 9.7% | pseudogene (495/1521 nt) | rhsO → | pseudogene, Rhs family protein |
| RA | 730,138 | A→G | 14.5% | pseudogene (550/1521 nt) | rhsO → | pseudogene, Rhs family protein |
| RA | 730,555 | A→C | 5.6% | pseudogene (967/1521 nt) | rhsO → | pseudogene, Rhs family protein |
| RA | 732,499 | T→C | 5.5% | pseudogene (219/1137 nt) | ybfL → | pseudogene, DDE domain transposase family;putative factor; Not classified; putative receptor protein |
| RA | 733,312 | A→G | 11.5% | pseudogene (1032/1137 nt) | ybfL → | pseudogene, DDE domain transposase family;putative factor; Not classified; putative receptor protein |
| RA | 749,128 | C→A | 7.5% | G266V (GGC→GTC) | gltA ← | citrate synthase |
| RA | 771,055 | C→T | 5.7% | I149I (ATC→ATT) | tolQ → | membrane spanning protein in TolA‑TolQ‑TolR complex |
| RA | 775,525 | C→T | 6.8% | R158C (CGC→TGC) | ybgF → | periplasmic TolA‑binding protein |
| RA | 826,422 | T→C | 5.7% | I32T (ATC→ACC) | rhlE → | ATP‑dependent RNA helicase |
| RA | 827,802 | T→C | 10.5% | intergenic (+110/+122) | rhlE → / ← ybiA | ATP‑dependent RNA helicase/DUF1768 family protein |
| RA | 831,596 | G→T | 8.5% | C298F (TGC→TTC) | ybiB → | putative family 3 glycosyltransferase |
| RA | 880,755 | C→A | 10.9% | intergenic (‑69/+17) | ybjH ← / ← ybjI | uncharacterized protein/5‑amino‑6‑(5‑phospho‑D‑ribitylamino)uracil phosphatase; pyrimidine phosphatase; riboflavin synthesis |
| RA | 908,341 | G→T | 11.3% | P310P (CCC→CCA) | hcp ← | hybrid‑cluster [4Fe‑2S‑2O] protein in anaerobic terminal reductases |
| RA | 922,027 | G→A | 7.5% | intergenic (‑128/+157) | infA ← / ← aat | translation initiation factor IF‑1/leucyl/phenylalanyl‑tRNA‑protein transferase |
| RA | 924,324 | C→T | 10.5% | G110R (GGA→AGA) | cydC ← | fused glutathione, cysteine exporter subunits of ABC superfamily: membrane component/ATP‑binding component |
| RA | 929,402 | C→A | 5.1% | R241R (CGC→CGA) | ftsK → | DNA translocase at septal ring sorting daughter chromsomes |
| RA | 933,661 | C→T | 5.7% | A71V (GCC→GTC) | rarA → | DNA‑dependent ATPase involved in processing recombination intermediates at replication forks |
| RA | 954,614 | C→A | 7.7% | T116N (ACC→AAC) | aroA → | 5‑enolpyruvylshikimate‑3‑phosphate synthetase |
| RA | 961,682 | G→T | 6.6% | G636V (GGT→GTT) | ycaI → | ComEC family inner membrane protein |
| RA | 979,730 | C→A | 16.8% | Q209K (CAA→AAA) | ycbL → | putative metal‑binding enzyme |
| RA | 1,004,843 | C→A | 5.2% | T515K (ACG→AAG) | rlmL → | fused 23S rRNA m(2)G2445 and m(7)G2069 methyltransferase, SAM‑dependent |
| RA | 1,010,784 | C→T | 5.3% | L145L (CTG→TTG) | pqiC → | DUF330 family putative lipoprotein |
| RA | 1,032,339 | C→T | 9.5% | H45H (CAC→CAT) | hyaF → | protein involved in nickel incorporation into hydrogenase‑1 proteins |
| RA | 1,035,148 | G→T | 5.7% | V133F (GTC→TTC) | cbdB → | cytochrome bd‑II oxidase, subunit II |
| RA | 1,045,283 | T→G | 14.4% | intergenic (‑83/‑6) | gfcA ← / → insA | O‑antigen capsule production threonine‑rich inner membrane protein/IS1 repressor TnpA |
| RA | 1,061,018:1 | +C | 14.3% | intergenic (+270/‑23) | yccE → / → agp | uncharacterized protein/glucose‑1‑phosphatase/inositol phosphatase |
| RA | 1,061,029:1 | +C | 9.8% | intergenic (+281/‑12) | yccE → / → agp | uncharacterized protein/glucose‑1‑phosphatase/inositol phosphatase |
| RA | 1,078,791 | C→A | 13.3% | L365M (CTG→ATG) | efeO → | inactive ferrous ion transporter EfeUOB |
| RA | 1,140,948 | C→T | 14.8% | Q185* (CAG→TAG) | rluC → | 23S rRNA pseudouridine(955,2504,2580) synthase |
| RA | 1,187,159 | G→A | 13.3% | A95V (GCG→GTG) | purB ← | adenylosuccinate lyase |
| RA | 1,195,050 | C→T | 5.4% | intergenic (+6/+85) | lit → / ← intE | e14 prophage; cell death peptidase, inhibitor of T4 late gene expression/e14 prophage; putative integrase |
| RA | 1,202,573 | C→T | 10.3% | P69S (CCG→TCG) | ymfQ → | prohage e14 tail protein homolog |
| RA | 1,203,094 | A→G | 6.5% | E46E (GAA→GAG) | stfP → | e14 prophage; uncharacterized protein |
| RA | 1,203,106 | G→T | 6.5% | V50V (GTG→GTT) | stfP → | e14 prophage; uncharacterized protein |
| RA | 1,203,115 | A→C | 7.3% | A53A (GCA→GCC) | stfP → | e14 prophage; uncharacterized protein |
| RA | 1,204,059 | C→T | 6.1% | A173T (GCT→ACT) | tfaE ← | e14 prophage; putative tail fiber assembly protein |
| RA | 1,208,289 | C→A | 10.5% | C92F (TGT→TTT) | ycgX ← | DUF1398 family protein |
| RA | 1,210,128 | C→A | 11.8% | V268V (GTG→GTT) | bluF ← | anti‑repressor for YcgE, blue light‑responsive; FAD‑binding; has c‑di‑GMP phosphodiesterase‑like EAL domain, but does not degrade c‑di‑GMP |
| RA | 1,229,843 | G→C | 16.0% | Q111E (CAG→GAG) | nhaB ← | sodium:proton antiporter |
| RA | 1,265,505 | A→G | 7.7% | intergenic (+126/+189) | rdlB → / ← ldrC | sRNA antisense regulator affects LdrB translation; proposed addiction module in LDR‑B repeat, with toxic peptide LdrB/toxic polypeptide, small |
| RA | 1,266,001 | G→T | 9.7% | intergenic (+85/+204) | rdlC → / ← chaA | sRNA antisense regulator affects LdrC translation; proposed addiction module in LDR‑C repeat, with toxic peptide LdrC/calcium/sodium:proton antiporter |
| RA | 1,282,249 | A→G | 24.8% | intergenic (+267/+273) | narI → / ← rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| RA | 1,287,235 | G→T | 7.4% | R108L (CGT→CTT) | galU → | glucose‑1‑phosphate uridylyltransferase |
| RA | 1,313,200 | C→A | 5.3% | L282F (TTG→TTT) | trpC ← | fused indole‑3‑glycerolphosphate synthetase/N‑(5‑phosphoribosyl)anthranilate isomerase |
| RA | 1,361,637 | G→A | 14.8% | P178L (CCA→CTA) | pspF ← | psp operon transcriptional activator |
| RA | 1,411,448 | C→A | 6.9% | A66S (GCT→TCT) | recE ← | Rac prophage; exonuclease VIII, 5' ‑> 3' specific dsDNA exonuclease |
| RA | 1,422,040 | A→G | 6.8% | pseudogene (944/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,060 | G→C | 10.9% | pseudogene (924/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,098 | G→A | 6.1% | pseudogene (886/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,528 | A→C | 5.3% | pseudogene (456/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,648 | G→C | 7.2% | pseudogene (336/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,681 | A→G | 5.8% | pseudogene (303/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,689 | G→A | 5.1% | pseudogene (295/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,426,104 | T→A | 5.9% | A933A (GCT→GCA) | stfR → | Rac prophage; putative tail fiber protein |
| RA | 1,434,927 | A→G | 7.1% | W39R (TGG→CGG) | pfo ← | pyruvate‑flavodoxin oxidoreductase |
| RA | 1,436,256 | C→T | 11.4% | R282H (CGT→CAT) | ldhA ← | fermentative D‑lactate dehydrogenase, NAD‑dependent |
| RA | 1,452,325 | C→A | 7.6% | A191E (GCA→GAA) | paaF → | 2,3‑dehydroadipyl‑CoA hydratase |
| RA | 1,460,458 | T→C | 8.0% | pseudogene (810/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,460,467 | G→A | 8.1% | pseudogene (819/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,460,515 | G→C | 11.4% | pseudogene (867/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,460,689 | A→G | 6.4% | pseudogene (1041/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,460,695 | T→G | 7.3% | pseudogene (1047/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,460,887 | G→C | 15.0% | pseudogene (1239/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,460,896 | C→T | 15.6% | pseudogene (1248/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,461,055 | A→G | 8.9% | pseudogene (1407/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,507,006 | C→A | 11.2% | P366T (CCC→ACC) | ydcS → | polyhydroxybutyrate (PHB) synthase, ABC transporter periplasmic binding protein homolog |
| RA | 1,593,448:1 | +C | 12.5% | coding (1019/1593 nt) | lsrK ← | autoinducer‑2 (AI‑2) kinase |
| RA | 1,662,720 | G→T | 14.0% | I34I (ATC→ATA) | mlc ← | glucosamine anaerobic growth regulon transcriptional repressor; autorepressor |
| RA | 1,662,842 | G→A | 8.2% | intergenic (‑21/+114) | mlc ← / ← ynfL | glucosamine anaerobic growth regulon transcriptional repressor; autorepressor/LysR family putative transcriptional regulator |
| RA | 1,678,492 | G→T | 13.8% | intergenic (+52/‑24) | rstB → / → tus | sensory histidine kinase of RstAB two‑component system, low Mg‑responsive via PhoQP/inhibitor of replication at Ter, DNA‑binding protein |
| RA | 1,764,068 | G→T | 6.8% | V246V (GTG→GTT) | ydiK → | UPF0118 family inner membrane protein |
| RA | 1,801,887 | C→A | 11.5% | T77T (ACC→ACA) | ydiZ → | uncharacterized protein |
| RA | 1,806,286 | C→A | 8.3% | P366T (CCG→ACG) | ydjN → | putative transporter |
| RA | 1,813,995 | C→A | 9.2% | G23V (GGG→GTG) | chbA ← | N,N'‑diacetylchitobiose‑specific enzyme IIA component of PTS |
| RA | 1,825,113 | G→A | 11.8% | A376V (GCG→GTG) | astC ← | succinylornithine transaminase, PLP‑dependent |
| RA | 1,853,264 | G→A | 12.8% | A408V (GCC→GTC) | ydjK ← | putative transporter |
| RA | 1,892,442 | C→T | 13.3% | R418R (CGC→CGT) | sdaA → | L‑serine dehydratase 1 |
| RA | 1,892,445 | C→T | 12.5% | V419V (GTC→GTT) | sdaA → | L‑serine dehydratase 1 |
| RA | 1,892,448 | G→A | 12.2% | S420S (TCG→TCA) | sdaA → | L‑serine dehydratase 1 |
| RA | 1,892,451 | G→C | 12.3% | L421L (CTG→CTC) | sdaA → | L‑serine dehydratase 1 |
| RA | 1,969,010 | C→A | 8.5% | G191V (GGG→GTG) | cheA ← | fused chemotactic sensory histidine kinase in two‑component regulatory system with CheB and CheY: sensory histidine kinase/signal sensing protein |
| RA | 1,977,397 | G→A | 8.0% | S385L (TCG→TTG) | araG ← | fused L‑arabinose transporter subunits of ABC superfamily: ATP‑binding components |
| RA | 1,979,754 | G→T | 14.3% | intergenic (‑145/‑652) | araF ← / → ftnB | L‑arabinose transporter subunit/ferritin B, putative ferrous iron reservoir |
| RA | 2,011,918 | C→A | 9.1% | P18T (CCT→ACT) | fliK → | flagellar hook‑length control protein |
| RA | 2,028,332 | G→A | 7.7% | pseudogene (139/531 nt) | yedS → | pseudogene, outer membrane protein homology; putative outer membrane protein |
| RA | 2,046,261 | C→A | 12.6% | pseudogene (549/1053 nt) | yeeL ← | pseudogene, glycosyltransferase homology |
| RA | 2,070,254 | C→A | 10.0% | intergenic (+19/‑44) | yeeS → / → yeeT | CP4‑44 prophage; putative DNA repair protein/CP4‑44 prophage; uncharacterized protein |
| RA | 2,072,750 | A→G | 8.3% | V31V (GTT→GTC) | yeeX ← | UPF0265 family protein |
| RA | 2,076,425:1 | +G | 13.3% | coding (189/1428 nt) | sbcB → | exodeoxyribonuclease I; exonuclease I |
| RA | 2,086,536 | G→T | 17.4% | G220W (GGG→TGG) | hisC → | histidinol‑phosphate aminotransferase |
| RA | 2,119,271 | G→A | 7.1% | R145C (CGC→TGC) | wcaH ← | GDP‑mannose mannosyl hydrolase |
| RA | 2,127,842 | G→T | 9.3% | A431E (GCG→GAG) | wzc ← | colanic acid production tyrosine‑protein kinase; autokinase; Ugd phosphorylase |
| RA | 2,130,036 | Δ1 bp | 8.2% | coding (689/1140 nt) | wza ← | colanic acid export protein; outer membrane auxillary lipoprotein |
| RA | 2,130,037 | Δ1 bp | 8.2% | coding (688/1140 nt) | wza ← | colanic acid export protein; outer membrane auxillary lipoprotein |
| RA | 2,130,043 | C→A | 8.5% | A228S (GCG→TCG) | wza ← | colanic acid export protein; outer membrane auxillary lipoprotein |
| RA | 2,141,494 | G→A | 12.9% | G114S (GGT→AGT) | yegD → | Hsp70 chaperone family protein |
| RA | 2,163,221 | C→A | 5.2% | pseudogene (428/475 nt) | gatR ← | pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted |
| RA | 2,184,801 | C→A | 8.6% | P108P (CCG→CCT) | yehC ← | putative periplasmic pilin chaperone |
| RA | 2,191,254 | G→A | 10.5% | pseudogene (1302/2847 nt) | yehH → | DUF4132 family pseudogene; defective yehI paralog; molybdate metabolism regulator, first fragment; molybdate metabolism regulator, second fragment 2; yehI' molR mutations have phenotypes and the N‑terminal molR fragment of yehI' may be expressed and may have retained or evolved MolR function |
| RA | 2,298,492 | A→G | 7.0% | intergenic (+620/+95) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,308,382 | G→T | 10.8% | A472A (GCG→GCT) | rcsD → | phosphotransfer intermediate protein in two‑component regulatory system with RcsBC |
| RA | 2,335,723 | G→T | 9.0% | D642E (GAC→GAA) | yfaL ← | adhesin |
| RA | 2,365,058 | G→A | 6.2% | L224L (CTG→CTA) | arnT → | 4‑amino‑4‑deoxy‑L‑arabinose transferase |
| RA | 2,394,275 | C→T | 10.5% | G254S (GGT→AGT) | nuoF ← | NADH:ubiquinone oxidoreductase, chain F |
| RA | 2,398,361 | A→T | 5.2% | L64Q (CTG→CAG) | nuoA ← | NADH:ubiquinone oxidoreductase, membrane subunit A |
| RA | 2,453,667 | G→T | 6.5% | S94R (AGC→AGA) | fadI ← | beta‑ketoacyl‑CoA thiolase, anaerobic, subunit |
| RA | 2,465,408 | A→G | 11.4% | pseudogene (194/579 nt) | yfdL ← | pseudogene, CPS‑53 (KpLE1) prophage;Phage or Prophage Related |
| RA | 2,465,515 | A→C | 9.8% | pseudogene (87/579 nt) | yfdL ← | pseudogene, CPS‑53 (KpLE1) prophage;Phage or Prophage Related |
| RA | 2,465,527 | C→T | 10.9% | pseudogene (75/579 nt) | yfdL ← | pseudogene, CPS‑53 (KpLE1) prophage;Phage or Prophage Related |
| RA | 2,481,906 | G→T | 5.1% | P248T (CCG→ACG) | yfdE ← | acetyl‑CoA:oxalate CoA‑transferase |
| RA | 2,504,846 | Δ1 bp | 14.0% | intergenic (+40/+101) | ypeC → / ← mntH | DUF2502 family putative periplasmic protein/manganese/divalent cation transporter |
| RA | 2,510,150 | G→A | 9.8% | Q388* (CAG→TAG) | yfeA ← | putative diguanylate cyclase |
| RA | 2,575,655 | C→A | 10.8% | S161I (AGT→ATT) | ypfG ← | DUF1176 family protein |
| RA | 2,586,043 | C→A | 8.7% | Q360K (CAG→AAG) | dapE → | N‑succinyl‑diaminopimelate deacylase |
| RA | 2,632,071 | G→A | 13.7% | P191L (CCG→CTG) | yfgM ← | putative anti‑RcsB factor |
| RA | 2,641,135 | C→A | 6.8% | V1504V (GTG→GTT) | yfhM ← | bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein |
| RA | 2,668,804 | C→T | 7.1% | C106Y (TGC→TAC) | yphC ← | putative Zn‑dependent NAD(P)‑binding oxidoreductase |
| RA | 2,684,151 | C→T | 6.1% | G103S (GGC→AGC) | glrK ← | sensor protein kinase regulating glmY sRNA in two‑component system with response regulator GlrR |
| RA | 2,685,225 | G→A | 5.2% | F1226F (TTC→TTT) | purL ← | phosphoribosylformyl‑glycineamide synthetase |
| RA | 2,691,466 | A→G | 9.7% | R148R (CGT→CGC) | pgpC ← | phosphatidylglycerophosphatase C, membrane bound |
| RA | 2,719,426 | T→C | 92.2% | intergenic (‑321/+2) | kgtP ← / ← rrfG | alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon |
| RA | 2,719,536 | G→T | 38.6% | noncoding (12/120 nt) | rrfG ← | 5S ribosomal RNA of rrnG operon |
| RA | 2,724,527 | T→C | 9.7% | intergenic (‑11/+432) | rrsG ← / ← clpB | 16S ribosomal RNA of rrnG operon/protein disaggregation chaperone |
| RA | 2,739,030 | G→A | 12.5% | A83V (GCG→GTG) | rimM ← | 16S rRNA processing protein |
| RA | 2,755,917 | C→A | 13.4% | R328M (AGG→ATG) | yfjK ← | DEAD/H helicase‑like protein, CP4‑57 putative defective prophage |
| RA | 2,761,401 | A→G | 6.1% | Q111Q (CAA→CAG) | yfjP → | CP4‑57 prophage; 50S ribosome‑binding GTPase family protein |
| RA | 2,763,911 | A→G | 8.9% | L36L (CTA→CTG) | ypjK → | CP4‑57 prophage; putative inner membrane protein |
| RA | 2,779,130 | T→C | 10.1% | noncoding (67/76 nt) | ileY ← | tRNA‑Ile |
| RA | 2,784,903 | C→T | 6.9% | A91V (GCG→GTG) | gabD → | succinate‑semialdehyde dehydrogenase I, NADP‑dependent |
| RA | 2,825,478 | G→A | 7.0% | D57D (GAC→GAT) | norR ← | anaerobic nitric oxide reductase DNA‑binding transcriptional activator |
| RA | 2,834,081 | G→T | 5.3% | G400V (GGC→GTC) | ascF → | fused cellobiose/arbutin/salicin‑specific PTS enzymes: IIB component/IC component |
| RA | 2,849,934 | G→A | 5.7% | R78C (CGT→TGT) | ygbA ← | uncharacterized protein |
| RA | 2,854,272 | C→A | 7.4% | A108S (GCA→TCA) | ygbI ← | DeoR family putative transcriptional regulator |
| RA | 2,861,231 | C→A | 8.3% | A294A (GCG→GCT) | nlpD ← | activator of AmiC murein hydrolase activity, lipoprotein |
| RA | 2,920,801 | C→A | 12.8% | Q379K (CAA→AAA) | ygdH → | UPF0717 family protein |
| RA | 2,934,972 | G→T | 5.9% | L7M (CTG→ATG) | ygdD ← | UPF0382 family inner membrane protein |
| RA | 2,940,796 | T→C | 6.7% | noncoding (51/77 nt) | metZ → | tRNA‑Met |
| RA | 2,940,797 | C→A | 6.6% | noncoding (52/77 nt) | metZ → | tRNA‑Met |
| RA | 2,944,424 | C→T | 9.7% | R466H (CGC→CAC) | recD ← | exonuclease V (RecBCD complex), alpha chain |
| RA | 2,946,241 | C→T | 9.7% | R1041H (CGC→CAC) | recB ← | exonuclease V (RecBCD complex), beta subunit |
| RA | 2,953,253 | C→A | 8.5% | V845V (GTG→GTT) | recC ← | exonuclease V (RecBCD complex), gamma chain |
| RA | 3,012,221 | G→A | 9.9% | D935N (GAC→AAC) | ygfK → | putative Fe‑S subunit oxidoreductase subunit |
| RA | 3,056,289 | C→A | 10.5% | P694Q (CCA→CAA) | scpA → | methylmalonyl‑CoA mutase |
| RA | 3,065,810 | Δ1 bp | 10.0% | coding (172/1164 nt) | pgk ← | phosphoglycerate kinase |
| RA | 3,065,811 | Δ1 bp | 10.0% | coding (171/1164 nt) | pgk ← | phosphoglycerate kinase |
| RA | 3,065,814 | T→C | 10.5% | V56V (GTA→GTG) ‡ | pgk ← | phosphoglycerate kinase |
| RA | 3,065,815 | A→G | 10.5% | V56A (GTA→GCA) ‡ | pgk ← | phosphoglycerate kinase |
| RA | 3,084,218 | C→A | 6.0% | A171A (GCC→GCA) | endA → | DNA‑specific endonuclease I |
| RA | 3,098,615 | C→T | 6.5% | A275V (GCG→GTG) | mltC → | membrane‑bound lytic murein transglycosylase C |
| RA | 3,128,933 | G→A | 7.9% | A266A (GCC→GCT) | pitB ← | phosphate transporter |
| RA | 3,155,543 | C→A | 7.1% | L162L (CTG→CTT) | ftsP ← | septal ring component that protects the divisome from stress; multicopy suppressor of ftsI(Ts) |
| RA | 3,191,891 | C→T | 7.0% | L370L (TTG→TTA) | glnE ← | fused deadenylyltransferase/adenylyltransferase for glutamine synthetase |
| RA | 3,198,665 | G→T | 7.7% | E205* (GAG→TAG) | plsY → | putative glycerol‑3‑phosphate acyltransferase |
| RA | 3,244,016 | G→T | 7.0% | A32A (GCG→GCT) | yqjF → | putative quinol oxidase subunit |
| RA | 3,273,299 | C→T | 5.3% | R343C (CGT→TGT) | kbaZ → | tagatose 6‑phosphate aldolase 1, kbaZ subunit |
| RA | 3,298,293 | G→A | 8.7% | A295V (GCG→GTG) | mtr ← | tryptophan transporter of high affinity |
| RA | 3,303,149 | G→A | 5.3% | A460V (GCC→GTC) | pnp ← | polynucleotide phosphorylase/polyadenylase |
| RA | 3,348,668 | G→A | 5.4% | L195L (CTG→CTA) | gltB → | glutamate synthase, large subunit |
| RA | 3,364,521 | G→T | 6.9% | D471E (GAC→GAA) | nanT ← | sialic acid transporter |
| RA | 3,387,718 | C→A | 12.5% | A634S (GCC→TCC) | yhdP ← | DUF3971‑AsmA2 domains protein |
| RA | 3,416,890 | T→G | 8.7% | noncoding (12/120 nt) | rrfF ← | 5S ribosomal RNA of rrnD operon |
| RA | 3,416,899 | A→G | 19.4% | noncoding (3/120 nt) | rrfF ← | 5S ribosomal RNA of rrnD operon |
| RA | 3,433,817 | C→A | 5.5% | R191L (CGT→CTT) | rpoA ← | RNA polymerase, alpha subunit |
| RA | 3,452,826 | C→T | 5.7% | L377L (CTG→TTG) | gspE → | general secretory pathway component, cryptic |
| RA | 3,491,993 | C→T | 8.2% | G269G (GGC→GGT) | cysG → | fused siroheme synthase 1,3‑dimethyluroporphyriongen III dehydrogenase and siroheme ferrochelatase/uroporphyrinogen methyltransferase |
| RA | 3,577,491 | T→A | 12.0% | L152Q (CTG→CAG) | insB1 → | IS1 transposase B |
| RA | 3,589,978 | C→A | 10.5% | E315* (GAG→TAG) | livK ← | leucine transporter subunit |
| RA | 3,612,202 | G→T | 5.3% | T85T (ACG→ACT) | nikR → | transcriptional repressor, Ni‑binding |
| RA | 3,616,121 | G→C | 7.9% | R1190R (CGG→CGC) | rhsB → | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor |
| RA | 3,617,887 | T→C | 7.7% | F50F (TTT→TTC) | yhhI → | putative transposase |
| RA | 3,619,070 | C→A | 5.1% | R365L (CGA→CTA) | yhhJ ← | inner membrane putative ABC transporter permease |
| RA | 3,619,370 | A→G | 5.5% | L265P (CTC→CCC) | yhhJ ← | inner membrane putative ABC transporter permease |
| RA | 3,620,010 | T→C | 8.3% | I52V (ATC→GTC) | yhhJ ← | inner membrane putative ABC transporter permease |
| RA | 3,631,305 | C→A | 7.9% | L102M (CTG→ATG) | pitA → | phosphate transporter, low‑affinity; tellurite importer |
| RA | 3,649,103 | C→A | 12.3% | A54S (GCT→TCT) | yhiD ← | putative Mg(2+) transport ATPase, inner membrane protein |
| RA | 3,669,120 | C→A | 7.0% | T325T (ACC→ACA) | yhjE → | MFS superfamily sugar transport 1 family protein |
| RA | 3,695,695 | G→T | 5.4% | L178L (CTC→CTA) | dppF ← | dipeptide transporter |
| RA | 3,740,674 | C→A | 8.9% | G77G (GGC→GGA) | lyxK → | L‑xylulose kinase |
| RA | 3,740,908 | C→T | 8.5% | C155C (TGC→TGT) | lyxK → | L‑xylulose kinase |
| RA | 3,755,668 | A→G | 5.2% | G42G (GGA→GGG) | rhsA → | Rhs family protein, putative polymorphic toxin; putative polysaccharide synthesis/export protein; putative neighboring cell growth inhibitor |
| RA | 3,760,936 | T→A | 11.3% | pseudogene (356/945 nt) | rhsJ → | Rhs‑family protein |
| RA | 3,766,363 | G→T | 9.1% | Q241H (CAG→CAT) | mtlA → | fused mannitol‑specific PTS enzymes: IIA components/IIB components/IIC components |
| RA | 3,778,840 | G→T | 9.3% | G74V (GGC→GTC) | gpmM → | phosphoglycero mutase III, cofactor‑independent |
| RA | 3,817,457 | G→T | 8.7% | V566V (GTG→GTT) | spoT → | bifunctional (p)ppGpp synthetase II/ guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
| RA | 3,844,044 | A→G | 6.8% | S15P (TCC→CCC) | uhpA ← | response regulator in two‑component regulatory system wtih UhpB |
| RA | 3,847,937 | G→T | 5.7% | G219V (GGT→GTT) | emrD → | multidrug efflux system protein |
| RA | 3,858,251 | G→T | 5.0% | G461G (GGC→GGA) | yidE ← | putative transporter |
| RA | 3,877,923 | A→G | 64.5% | Q24R (CAG→CGG) | rnpA → | protein C5 component of RNase P |
| RA | 3,885,567 | C→A | 9.1% | S198* (TCG→TAG) | mdtL → | multidrug efflux system protein |
| RA | 3,912,901 | C→T | 5.3% | R106H (CGT→CAT) | atpA ← | F1 sector of membrane‑bound ATP synthase, alpha subunit |
| RA | 3,939,980 | A→C | 5.7% | intergenic (+13/‑80) | rrlC → / → rrfC | 23S ribosomal RNA of rrnC operon/5S ribosomal RNA of rrnC operon |
| RA | 4,005,245 | G→A | 12.7% | L270L (CTG→CTA) P311L (CCA→CTA) |
yigM → metR ← |
putative inner membrane EamA‑like transporter methionine biosynthesis regulon transcriptional regulator |
| RA | 4,019,993 | Δ1 bp | 73.4% | coding (107/702 nt) | fre → | NAD(P)H‑flavin reductase |
| RA | 4,041,806 | C→T | 7.4% | A494V (GCC→GTC) | polA → | fused DNA polymerase I 5'‑>3' polymerase/3'‑>5' exonuclease/5'‑>3' exonuclease |
| RA | 4,045,374 | Δ1 bp | 6.2% | intergenic (+158/‑31) | yihI → / → hemN | activator of Der GTPase/coproporphyrinogen III oxidase, SAM and NAD(P)H dependent, oxygen‑independent |
| RA | 4,045,375 | Δ1 bp | 6.2% | intergenic (+159/‑30) | yihI → / → hemN | activator of Der GTPase/coproporphyrinogen III oxidase, SAM and NAD(P)H dependent, oxygen‑independent |
| RA | 4,045,376 | Δ1 bp | 6.2% | intergenic (+160/‑29) | yihI → / → hemN | activator of Der GTPase/coproporphyrinogen III oxidase, SAM and NAD(P)H dependent, oxygen‑independent |
| RA | 4,073,364 | C→A | 9.0% | intergenic (+35/+295) | yiiF → / ← fdhE | putative thymol sensitivity protein, CopG family putative transcriptional regulator/formate dehydrogenase formation protein |
| RA | 4,076,588 | T→C | 6.8% | P865P (CCA→CCG) | fdoG ← | formate dehydrogenase‑O, large subunit |
| RA | 4,106,844 | C→A | 5.7% | V103F (GTC→TTC) | glpK ← | glycerol kinase |
| RA | 4,143,375 | A→G | 15.0% | intergenic (‑349/+249) | ppc ← / ← argE | phosphoenolpyruvate carboxylase/acetylornithine deacetylase |
| RA | 4,165,449 | C→T | 30.4% | noncoding (50/85 nt) | tyrU → | tRNA‑Tyr |
| RA | 4,165,450 | A→C | 30.2% | noncoding (51/85 nt) | tyrU → | tRNA‑Tyr |
| RA | 4,178,500 | C→T | 79.4% | R1075C (CGT→TGT) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,192,253 | C→G | 8.6% | L134V (CTG→GTG) | zraS → | sensory histidine kinase in two‑component regulatory system with ZraR |
| RA | 4,209,001 | C→A | 8.7% | L160I (CTA→ATA) | aceK → | isocitrate dehydrogenase kinase/phosphatase |
| RA | 4,234,946 | G→T | 10.8% | L20I (CTA→ATA) | malF ← | maltose transporter subunit |
| RA | 4,239,178 | G→T | 5.6% | S427I (AGC→ATC) | lamB → | maltose outer membrane porin (maltoporin) |
| RA | 4,242,954 | G→T | 16.7% | S4I (AGT→ATT) | ubiA → | p‑hydroxybenzoate octaprenyltransferase |
| RA | 4,252,049 | G→T | 6.0% | T151T (ACG→ACT) | dusA → | tRNA‑dihydrouridine synthase A |
| RA | 4,260,848 | C→A | 8.5% | P88Q (CCA→CAA) | yjbR → | DUF419 family protein |
| RA | 4,270,909 | G→A | 6.2% | W334* (TGG→TGA) | yjcE → | putative cation/proton antiporter |
| RA | 4,271,878:1 | +G | 11.8% | coding (1126/1293 nt) | yjcF ← | pentapeptide repeats protein |
| RA | 4,285,970 | C→T | 9.6% | intergenic (+248/+283) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,285,988 | C→T | 8.6% | intergenic (+266/+265) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,315,705 | G→T | 6.5% | intergenic (‑147/+511) | yjdN ← / ← yjdM | metalloprotein superfamily protein/zinc‑ribbon family protein |
| RA | 4,315,708 | T→C | 6.1% | intergenic (‑150/+508) | yjdN ← / ← yjdM | metalloprotein superfamily protein/zinc‑ribbon family protein |
| RA | 4,328,977 | C→A | 7.4% | A454A (GCG→GCT) | adiA ← | arginine decarboxylase |
| RA | 4,336,187 | G→A | 7.9% | S319S (TCC→TCT) | fumB ← | anaerobic class I fumarate hydratase (fumarase B) |
| RA | 4,336,205 | G→A | 8.0% | G313G (GGC→GGT) | fumB ← | anaerobic class I fumarate hydratase (fumarase B) |
| RA | 4,336,238 | A→G | 11.3% | R302R (CGT→CGC) | fumB ← | anaerobic class I fumarate hydratase (fumarase B) |
| RA | 4,336,241 | G→A | 10.9% | I301I (ATC→ATT) | fumB ← | anaerobic class I fumarate hydratase (fumarase B) |
| RA | 4,336,250 | A→G | 5.2% | I298I (ATT→ATC) | fumB ← | anaerobic class I fumarate hydratase (fumarase B) |
| RA | 4,336,259 | C→A | 6.5% | A295A (GCG→GCT) | fumB ← | anaerobic class I fumarate hydratase (fumarase B) |
| RA | 4,344,424 | G→T | 14.2% | P37P (CCC→CCA) | lysU ← | lysine tRNA synthetase, inducible |
| RA | 4,368,626 | C→T | 5.5% | V46M (GTG→ATG) | ampC ← | penicillin‑binding protein; beta‑lactamase, intrinsically weak |
| RA | 4,426,547 | C→A | 7.2% | intergenic (‑165/‑25) | cpdB ← / → cysQ | 2':3'‑cyclic‑nucleotide 2'‑phosphodiesterase/3'(2'),5'‑bisphosphate nucleotidase |
| RA | 4,438,736 | C→A | 6.2% | G76G (GGC→GGA) | chpB → | toxin of the ChpB‑ChpS toxin‑antitoxin system |
| RA | 4,454,669 | C→A | 6.2% | A443A (GCG→GCT) | treB ← | fused trehalose(maltose)‑specific PTS enzyme: IIB component/IIC component |
| RA | 4,456,350 | G→A | 5.2% | C238C (TGC→TGT) | treR ← | trehalose 6‑phosphate‑inducible trehalose regulon transcriptional repressor |
| RA | 4,456,809 | C→T | 6.2% | L85L (CTG→CTA) | treR ← | trehalose 6‑phosphate‑inducible trehalose regulon transcriptional repressor |
| RA | 4,461,853:1 | +C | 8.0% | coding (360/936 nt) | pyrB ← | aspartate carbamoyltransferase, catalytic subunit |
| RA | 4,461,856 | A→G | 8.3% | F119F (TTT→TTC) ‡ | pyrB ← | aspartate carbamoyltransferase, catalytic subunit |
| RA | 4,461,857 | A→C | 8.3% | F119C (TTT→TGT) ‡ | pyrB ← | aspartate carbamoyltransferase, catalytic subunit |
| RA | 4,461,858 | A→T | 8.3% | F119I (TTT→ATT) ‡ | pyrB ← | aspartate carbamoyltransferase, catalytic subunit |
| RA | 4,461,859 | C→A | 8.1% | E118D (GAG→GAT) ‡ | pyrB ← | aspartate carbamoyltransferase, catalytic subunit |
| RA | 4,461,861 | C→T | 8.5% | E118K (GAG→AAG) ‡ | pyrB ← | aspartate carbamoyltransferase, catalytic subunit |
| RA | 4,461,865 | Δ1 bp | 8.5% | coding (348/936 nt) | pyrB ← | aspartate carbamoyltransferase, catalytic subunit |
| RA | 4,461,870 | Δ1 bp | 8.2% | coding (343/936 nt) | pyrB ← | aspartate carbamoyltransferase, catalytic subunit |
| RA | 4,461,872 | C→T | 8.2% | R114H (CGC→CAC) | pyrB ← | aspartate carbamoyltransferase, catalytic subunit |
| RA | 4,508,415 | T→C | 5.8% | T24T (ACT→ACC) | insA → | IS1 repressor TnpA |
| RA | 4,508,633 | A→G | 8.7% | pseudogene (96/504 nt) | insB1 → | IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 4,508,645 | T→C | 7.4% | pseudogene (108/504 nt) | insB1 → | IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 4,508,648 | G→C | 7.2% | pseudogene (111/504 nt) | insB1 → | IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 4,508,651 | T→C | 6.8% | pseudogene (114/504 nt) | insB1 → | IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 4,508,690 | T→G | 5.9% | pseudogene (153/504 nt) | insB1 → | IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 4,524,719 | C→A | 5.5% | pseudogene (112/213 nt) | yjhR → | pseudogene, helicase family; putative frameshift suppressor |
| RA | 4,536,220 | T→C | 10.0% | A436A (GCT→GCC) | fimD → | fimbrial usher outer membrane porin protein; FimCD chaperone‑usher |
| RA | 4,545,691 | T→C | 7.1% | T149T (ACA→ACG) | yjiC ← | uncharacterized protein |
| RA | 4,608,803 | C→A | 7.4% | A253E (GCG→GAG) | deoA → | thymidine phosphorylase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 80539 | 80703 | 165 | 6 [2] | [5] 6 | leuL/leuO | leu operon leader peptide/global transcription factor |
| * | * | ÷ | CP009273 | 463853 | 464302 | 450 | 7 [4] | [5] 6 | [ybaO] | [ybaO] |
| * | * | ÷ | CP009273 | 1459361 | 1459520 | 160 | 10 [4] | [5] 7 | ynbG | ynbG |
| * | * | ÷ | CP009273 | 1524297 | 1524433 | 137 | 6 [5] | [4] 6 | ydcD | uncharacterized protein |
| * | * | ÷ | CP009273 | 1888045 | 1888137 | 93 | 7 [5] | [4] 6 | yoaB/yoaC | putative reactive intermediate deaminase/DUF1889 family protein |
| * | * | ÷ | CP009273 | 2027281 | 2027378 | 98 | 6 [3] | [4] 7 | rseX/yedS | sRNA antisense regulator of ompA and ompC translation, Hfq‑dependent/pseudogene, outer membrane protein homology; putative outer membrane protein |
| * | * | ÷ | CP009273 | 2463637 | 2463814 | 178 | 6 [5] | [5] 6 | gtrS | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| * | * | ÷ | CP009273 | 2622955 | 2623041 | 87 | 6 [5] | [3] 8 | yfgG/yfgH | uncharacterized protein/outer membrane integrity lipoprotein |
| * | * | ÷ | CP009273 | 3178623 | 3178724 | 102 | 6 [5] | [5] 6 | yqiC/ygiL | BMFP family putative fusogenic protein/putative fimbrial‑like adhesin protein |
| * | * | ÷ | CP009273 | 3763054 | 3763251 | 198 | 6 [5] | [4] 6 | [yibV] | [yibV] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 274874 = | NA (NA) | 5 (0.110) | 5/248 | NT | 17.2% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | CP009273 | = 1972861 | 24 (0.500) | intergenic (‑407/‑373) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein | |||||
| * | ? | CP009273 | 360104 = | 38 (0.800) | 31 (0.650) | 17/248 | NT | 44.9% | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | = 360286 | NA (NA) | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor | |||||
| * | ? | CP009273 | = 370385 | 52 (1.510) | 13 (0.420) | 8/162 | NT | 21.8% | intergenic (+48/‑530) | mhpE/mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| ? | CP009273 | = 372977 | NA (NA) | noncoding (187/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | CP009273 | 370386 = | NA (NA) | 22 (0.710) | 7/162 | NT | 39.8% | noncoding (1/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | 372978 = | 37 (1.080) | intergenic (+211/+13) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | CP009273 | = 370414 | 53 (1.110) | 4 (0.120) | 4/174 | NT | 10.7% | noncoding (29/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | = 372848 | 30 (0.900) | noncoding (58/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | CP009273 | 560211 = | 36 (0.760) | 3 (0.100) | 3/154 | NT | 12.7% | noncoding (33/77 nt) | argU | tRNA‑Arg |
| ? | CP009273 | = 581512 | 19 (0.650) | intergenic (‑423/‑1) | ompT/pauD | DLP12 prophage; outer membrane protease VII (outer membrane protein 3b)/tRNA‑OTHER | |||||
| * | ? | CP009273 | 1203246 = | 24 (0.500) | 18 (0.440) | 11/216 | NT | 48.7% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 17 (0.410) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 27 (0.570) | 10 (0.240) | 7/216 | NT | 33.1% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 17 (0.410) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 1972769 = | 10 (0.210) | 55 (1.170) | 21/246 | NT | 84.7% | intergenic (‑315/‑465) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| ? | CP009273 | 3576788 = | NA (NA) | intergenic (+10/‑55) | yrhA/insA | pseudogene, interrupted by IS1E/IS1 repressor TnpA | |||||
| * | ? | CP009273 | = 1972777 | 9 (0.190) | 34 (0.710) | 18/248 | NT | 79.1% | intergenic (‑323/‑457) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| ? | CP009273 | = 3577555 | NA (NA) | intergenic (+15/‑1) | insB1/yrhA | IS1 transposase B/pseudogene, interrupted by IS1E | |||||