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 | 12,178 | G→T | 10.4% | G6C (GGT→TGT) | dnaK → | chaperone Hsp70, with co‑chaperone DnaJ |
| RA | 65,176 | G→T | 10.5% | P202Q (CCG→CAG) | polB ← | DNA polymerase II |
| RA | 68,677 | G→T | 6.7% | intergenic (+75/+39) | yabI → / ← thiQ | DedA family inner membrane protein/thiamine, thiamine pyrophosphate ABC transporter ATPase; ThiBPQ thiamine, thiamine pyrophosphate importer |
| RA | 76,045 | T→A | 8.3% | Q436L (CAG→CTG) | leuC ← | 3‑isopropylmalate dehydratase large subunit |
| RA | 76,977:1 | +A | 9.4% | coding (375/1401 nt) | leuC ← | 3‑isopropylmalate dehydratase large subunit |
| RA | 76,977:2 | +C | 9.4% | coding (375/1401 nt) | leuC ← | 3‑isopropylmalate dehydratase large subunit |
| RA | 126,734 | G→T | 7.1% | I338I (ATC→ATA) | yacH ← | uncharacterized protein |
| RA | 180,291 | G→T | 7.8% | R98S (CGT→AGT) | yaeH ← | UPF0325 family protein |
| RA | 187,008 | T→C | 6.3% | A216A (GCT→GCC) | rpsB → | 30S ribosomal subunit protein S2 |
| RA | 195,503 | C→A | 6.1% | A363A (GCC→GCA) | bamA → | BamABCDE complex OM biogenesis outer membrane pore‑forming assembly factor |
| RA | 208,741 | G→T | 7.8% | L126L (CTG→CTT) | yaeR → | putative lyase |
| RA | 209,682 | G→T | 30.1% | A289S (GCC→TCC) | tilS → | tRNA(Ile)‑lysidine synthetase |
| RA | 212,936 | G→A | 10.8% | C185C (TGC→TGT) | yaeF ← | putative lipoprotein |
| RA | 221,373:1 | +G | 7.8% | noncoding (1116/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,380 | T→A | 7.8% | noncoding (1123/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,390 | Δ1 bp | 7.3% | noncoding (1133/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,391 | G→A | 7.3% | noncoding (1134/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,393 | C→T | 7.6% | noncoding (1136/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,395 | G→A | 9.1% | noncoding (1138/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,397 | C→T | 7.6% | noncoding (1140/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,398 | C→T | 7.6% | noncoding (1141/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,402 | A→C | 8.0% | noncoding (1145/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,407 | A→T | 7.9% | noncoding (1150/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,412 | A→T | 7.9% | noncoding (1155/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,420 | A→G | 8.1% | noncoding (1163/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,425 | T→C | 12.4% | noncoding (1168/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,430 | T→C | 12.5% | noncoding (1173/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,455 | G→A | 15.4% | noncoding (1198/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,464 | G→C | 15.6% | noncoding (1207/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 232,201 | G→T | 6.4% | P97T (CCA→ACA) | rnhA ← | ribonuclease HI, degrades RNA of DNA‑RNA hybrids |
| RA | 240,717 | G→A | 6.9% | intergenic (+109/‑97) | gmhA → / → yafJ | D‑sedoheptulose 7‑phosphate isomerase/putative amidotransfease |
| RA | 249,864 | C→A | 7.7% | intergenic (+216/‑102) | yafP → / → ykfJ | putative acyl‑CoA transferase/pseudogene |
| RA | 249,874 | G→C | 15.4% | intergenic (+226/‑92) | yafP → / → ykfJ | putative acyl‑CoA transferase/pseudogene |
| RA | 249,908 | A→G | 18.3% | intergenic (+260/‑58) | yafP → / → ykfJ | putative acyl‑CoA transferase/pseudogene |
| RA | 249,918 | T→A | 16.2% | intergenic (+270/‑48) | yafP → / → ykfJ | putative acyl‑CoA transferase/pseudogene |
| RA | 249,924 | T→C | 18.7% | intergenic (+276/‑42) | yafP → / → ykfJ | putative acyl‑CoA transferase/pseudogene |
| RA | 251,900 | C→A | 11.8% | G102C (GGC→TGC) | pepD ← | aminoacyl‑histidine dipeptidase (peptidase D) |
| RA | 262,756 | C→A | 7.3% | intergenic (‑78/+139) | ykfK ← / ← yafZ | CP4‑6 prophage; putative DNA‑binding transcriptional regulator;Phage or Prophage Related/CP4‑6 prophage; conserved protein |
| RA | 262,758 | A→G | 8.1% | intergenic (‑80/+137) | ykfK ← / ← yafZ | CP4‑6 prophage; putative DNA‑binding transcriptional regulator;Phage or Prophage Related/CP4‑6 prophage; conserved protein |
| RA | 263,324 | A→G | 6.8% | G131G (GGT→GGC) | yafZ ← | CP4‑6 prophage; conserved protein |
| RA | 263,333 | G→C | 12.4% | L128L (CTC→CTG) | yafZ ← | CP4‑6 prophage; conserved protein |
| RA | 263,336 | C→A | 8.9% | G127G (GGG→GGT) | yafZ ← | CP4‑6 prophage; conserved protein |
| RA | 267,713 | A→G | 6.3% | pseudogene (239/426 nt) | insN → | pseudogene, IS911 transposase A;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 267,720 | A→C | 5.3% | pseudogene (246/426 nt) | insN → | pseudogene, IS911 transposase A;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 267,834 | G→T | 5.6% | pseudogene (360/426 nt) | insN → | pseudogene, IS911 transposase A;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 315,569 | G→A | 8.9% | C48C (TGC→TGT) | rclA ← | reactive chlorine stress species (RCS) resistance protein; pyridine nucleotide‑dependent disulfide oxidoreductase family |
| RA | 323,011 | G→A | 17.1% | S478S (TCC→TCT) | betB ← | betaine aldehyde dehydrogenase, NAD‑dependent |
| RA | 326,415 | C→A | 8.4% | T414T (ACC→ACA) | betT → | choline transporter of high affinity |
| RA | 344,685 | C→T | 11.4% | A98V (GCG→GTG) | prpB → | 2‑methylisocitrate lyase |
| RA | 344,823 | C→T | 9.5% | A144V (GCG→GTG) | prpB → | 2‑methylisocitrate lyase |
| RA | 353,568 | G→A | 7.8% | A278A (GCC→GCT) | cynR ← | transcriptional activator of cyn operon; autorepressor |
| RA | 370,624 | G→A | 10.0% | intergenic (+287/‑291) | mhpE → / → mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| RA | 370,657:1 | +C | 8.5% | intergenic (+320/‑258) | mhpE → / → mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| RA | 370,658 | T→A | 8.5% | intergenic (+321/‑257) | mhpE → / → mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| RA | 370,659 | T→A | 10.2% | intergenic (+322/‑256) | mhpE → / → mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| RA | 372,848 | A→G | 5.1% | intergenic (+81/+143) | yaiL → / ← frmB | DUF2058 family protein/S‑formylglutathione hydrolase |
| RA | 372,887:1 | +A | 7.2% | intergenic (+120/+104) | yaiL → / ← frmB | DUF2058 family protein/S‑formylglutathione hydrolase |
| RA | 372,888 | C→G | 7.1% | intergenic (+121/+103) | yaiL → / ← frmB | DUF2058 family protein/S‑formylglutathione hydrolase |
| RA | 379,333 | G→T | 7.0% | T20K (ACG→AAG) | yaiP ← | putative family 2 glycosyltransferase |
| RA | 383,904 | C→A | 5.9% | S218R (AGC→AGA) | tauD → | taurine dioxygenase, 2‑oxoglutarate‑dependent |
| RA | 401,028 | C→A | 14.9% | G25C (GGT→TGT) | proC ← | pyrroline‑5‑carboxylate reductase, NAD(P)‑binding |
| RA | 425,914 | G→A | 16.2% | Q318Q (CAG→CAA) | secF → | SecYEG protein translocase auxillary subunit |
| RA | 449,128 | C→A | 6.5% | V166F (GTT→TTT) | yajG ← | putative lipoprotein |
| RA | 450,943 | G→T | 8.7% | G119C (GGT→TGT) | tig → | peptidyl‑prolyl cis/trans isomerase (trigger factor) |
| RA | 465,820 | T→C | 7.4% | D498D (GAT→GAC) | mdlA → | putative multidrug transporter subunit of ABC superfamily, ATP‑binding component |
| RA | 484,642 | C→A | 6.2% | A884D (GCC→GAC) | mscK → | mechanosensitive channel protein, intermediate conductance, K+ regulated |
| RA | 496,086 | G→A | 11.5% | G169D (GGC→GAC) | gsk → | inosine/guanosine kinase |
| RA | 496,088 | C→A | 11.4% | H170N (CAC→AAC) | gsk → | inosine/guanosine kinase |
| RA | 496,930 | T→C | 7.4% | intergenic (+45/+88) | gsk → / ← ybaL | inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter |
| RA | 496,935 | T→A | 7.7% | intergenic (+50/+83) | gsk → / ← ybaL | inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter |
| RA | 496,940 | C→T | 8.2% | intergenic (+55/+78) | gsk → / ← ybaL | inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter |
| RA | 496,941 | T→G | 8.2% | intergenic (+56/+77) | gsk → / ← ybaL | inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter |
| RA | 496,943 | T→A | 8.2% | intergenic (+58/+75) | gsk → / ← ybaL | inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter |
| RA | 496,944 | C→T | 8.2% | intergenic (+59/+74) | gsk → / ← ybaL | inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter |
| RA | 502,119 | C→A | 7.4% | A140A (GCG→GCT) | ybaK ← | Cys‑tRNA(Pro)/Cys‑tRNA(Cys) deacylase |
| RA | 510,208 | G→A | 6.8% | G36G (GGC→GGT) | ybbJ ← | inner membrane protein that stimulates the ftsH htpX mutant suppressor activity of QmcA |
| RA | 521,059 | G→A | 8.1% | E781E (GAG→GAA) | rhsD → | Rhs family putative polymorphic toxin |
| RA | 521,092 | C→T | 8.0% | S792S (AGC→AGT) | rhsD → | Rhs family putative polymorphic toxin |
| RA | 535,575 | G→T | 12.6% | A325S (GCC→TCC) | allB → | allantoinase |
| RA | 574,073 | C→A | 7.3% | V93L (GTG→TTG) | borD ← | DLP12 prophage; putative lipoprotein |
| RA | 673,919 | G→T | 9.8% | R350L (CGT→CTT) | djlB → | putative HscC co‑chaperone, uncharacterized J domain‑containing protein |
| RA | 688,219 | T→G | 8.7% | M206L (ATG→CTG) | ybeZ ← | PhoH‑like heat shock protein |
| RA | 688,669 | C→A | 13.0% | V56F (GTC→TTC) | ybeZ ← | PhoH‑like heat shock protein |
| RA | 701,654 | C→T | 5.4% | P36S (CCG→TCG) | glnS → | glutamyl‑tRNA synthetase |
| RA | 705,545 | G→A | 10.8% | W100* (TGG→TGA) | chiQ → | chitosugar‑induced verified lipoprotein |
| RA | 726,406 | C→A | 8.0% | I456I (ATC→ATA) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 726,848 | A→G | 5.1% | T604A (ACC→GCC) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,171 | T→G | 5.4% | N711K (AAT→AAG) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,174 | C→T | 5.3% | G712G (GGC→GGT) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,207 | C→T | 9.0% | R723R (CGC→CGT) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,325 | A→G | 5.0% | N763D (AAT→GAT) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,329 | A→C | 5.4% | E764A (GAA→GCA) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,369 | A→G | 6.7% | A777A (GCA→GCG) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,375 | A→G | 6.6% | G779G (GGA→GGG) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 727,989 | C→A | 8.3% | A984E (GCA→GAA) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 730,555 | A→C | 10.0% | pseudogene (967/1521 nt) | rhsO → | pseudogene, Rhs family protein |
| RA | 757,205 | C→A | 10.0% | R76R (CGC→CGA) | sucB → | dihydrolipoyltranssuccinase |
| RA | 799,801 | G→T | 7.4% | M281I (ATG→ATT) | ybhJ → | putative hydratase |
| RA | 814,234 | G→A | 10.0% | W70* (TGG→TAG) | moaC → | molybdopterin biosynthesis, protein C |
| RA | 824,905 | C→T | 7.9% | G175D (GGT→GAT) | ybhG ← | putative membrane fusion protein (MFP) component of efflux pump, membrane anchor |
| RA | 852,945 | C→A | 9.5% | T509T (ACC→ACA) | ybiT → | putative transporter subunit of ABC superfamily: ATP‑binding component |
| RA | 864,031 | G→A | 9.3% | T352T (ACG→ACA) | gsiA → | glutathione transporter ATP‑binding protein, ABC superfamily |
| RA | 864,970 | G→A | 8.2% | G35E (GGA→GAA) | gsiB → | glutathione periplasmic binding protein, ABC superfamily transporter |
| RA | 895,256 | A→G | 9.0% | intergenic (+155/+44) | rlmC → / ← artJ | 23S rRNA m(5)U747 methyltransferase, SAM‑dependent/arginine binding protein, periplasmic |
| RA | 895,258 | C→G | 9.0% | intergenic (+157/+42) | rlmC → / ← artJ | 23S rRNA m(5)U747 methyltransferase, SAM‑dependent/arginine binding protein, periplasmic |
| RA | 895,264 | C→A | 6.4% | intergenic (+163/+36) | rlmC → / ← artJ | 23S rRNA m(5)U747 methyltransferase, SAM‑dependent/arginine binding protein, periplasmic |
| RA | 895,274 | A→G | 6.1% | intergenic (+173/+26) | rlmC → / ← artJ | 23S rRNA m(5)U747 methyltransferase, SAM‑dependent/arginine binding protein, periplasmic |
| RA | 908,411 | T→C | 9.5% | K287R (AAG→AGG) | hcp ← | hybrid‑cluster [4Fe‑2S‑2O] protein in anaerobic terminal reductases |
| RA | 912,648 | G→T | 7.6% | E240D (GAG→GAT) | ybjD → | putative OLD family ATP‑dependent endonuclease; DUF2813 family protein |
| RA | 924,288 | G→A | 10.8% | R122C (CGC→TGC) | cydC ← | fused glutathione, cysteine exporter subunits of ABC superfamily: membrane component/ATP‑binding component |
| RA | 929,070 | G→T | 6.9% | A131S (GCA→TCA) | ftsK → | DNA translocase at septal ring sorting daughter chromsomes |
| RA | 929,085 | G→T | 7.4% | D136Y (GAT→TAT) | ftsK → | DNA translocase at septal ring sorting daughter chromsomes |
| RA | 946,227 | G→T | 7.3% | L104M (CTG→ATG) | pflA ← | [formate‑C‑acetyltransferase 1]‑activating enzyme; pyruvate formate‑lyase 1‑activating enzyme |
| RA | 953,376 | G→T | 18.8% | D90Y (GAT→TAT) | serC → | 3‑phosphoserine/phosphohydroxythreonine aminotransferase |
| RA | 955,951 | G→A | 6.9% | A78T (GCA→ACA) | ycaL → | putative peptidase‑related chaperone |
| RA | 1,004,058 | G→T | 9.2% | E253D (GAG→GAT) | rlmL → | fused 23S rRNA m(2)G2445 and m(7)G2069 methyltransferase, SAM‑dependent |
| RA | 1,016,418 | C→A | 100% | intergenic (‑43/‑176) | sulA ← / → sxy | SOS cell division inhibitor/CRP‑S‑dependent promoter expression factor |
| RA | 1,018,597 | T→C | 7.5% | H248R (CAC→CGC) | yccS ← | putative transporter, FUSC superfamily inner membrane protein, tandem domains |
| RA | 1,024,901 | G→A | 9.3% | T175T (ACC→ACT) | rlmI ← | 23S rRNA m(5)C1962 methyltransferase, SAM‑dependent |
| RA | 1,027,856 | G→T | 10.0% | D88Y (GAT→TAT) | hyaA → | hydrogenase 1, small subunit |
| RA | 1,034,485 | G→T | 7.5% | L430F (TTG→TTT) | cbdA → | cytochrome bd‑II oxidase, subunit I |
| RA | 1,045,283 | T→G | 6.8% | intergenic (‑83/‑6) | gfcA ← / → insA | O‑antigen capsule production threonine‑rich inner membrane protein/IS1 repressor TnpA |
| RA | 1,057,022 | G→A | 7.4% | A771T (GCA→ACA) | torA → | trimethylamine N‑oxide (TMAO) reductase I, catalytic subunit |
| RA | 1,080,898 | G→T | 14.3% | A151S (GCG→TCG) | phoH → | ATP‑binding protein; putative PhoH family P‑loop ATPase |
| RA | 1,085,162 | G→T | 5.6% | A51E (GCG→GAG) | pgaB ← | poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine (PGA) N‑deacetylase outer membrane export lipoprotein |
| RA | 1,124,395 | G→T | 9.1% | V367V (GTG→GTT) | murJ → | putative peptidoglycan lipid II flippase |
| RA | 1,124,720 | T→C | 5.3% | W476R (TGG→CGG) | murJ → | putative peptidoglycan lipid II flippase |
| RA | 1,130,659 | G→T | 7.7% | V159L (GTA→TTA) | flgG → | flagellar component of cell‑distal portion of basal‑body rod |
| RA | 1,165,252 | G→T | 20.2% | A193A (GCC→GCA) | ldtC ← | L,D‑transpeptidase linking Lpp to murein |
| RA | 1,211,791 | C→A | 11.5% | H90N (CAT→AAT) | ymgA → | RcsB connector protein for regulation of biofilm |
| RA | 1,218,859 | G→T | 6.4% | C47F (TGT→TTT) | ymgJ → | uncharacterized protein |
| RA | 1,265,888 | T→G | 11.1% | noncoding (40/68 nt) | rdlC → | sRNA antisense regulator affects LdrC translation; proposed addiction module in LDR‑C repeat, with toxic peptide LdrC |
| RA | 1,282,249 | A→G | 12.7% | intergenic (+267/+273) | narI → / ← rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| RA | 1,302,398 | C→A | 12.1% | A169S (GCG→TCG) | clsA ← | cardiolipin synthase 1 |
| RA | 1,336,642 | G→T | 6.7% | A155A (GCG→GCT) | pyrF → | orotidine‑5'‑phosphate decarboxylase |
| RA | 1,357,341 | T→C | 8.7% | R114R (CGT→CGC) | puuC → | gamma‑glutamyl‑gamma‑aminobutyraldehyde dehydrogenase; succinate semialdehyde dehydrogenase |
| RA | 1,360,830 | C→A | 8.1% | P342T (CCG→ACG) | puuE → | 4‑aminobutyrate aminotransferase, PLP‑dependent |
| RA | 1,365,602 | C→T | 7.7% | T377I (ACA→ATA) | ycjM → | alpha amylase catalytic domain family protein |
| RA | 1,413,548 | G→T | 12.5% | G7G (GGC→GGA) | ydaF ← | Rac prophage; uncharacterized protein |
| RA | 1,422,040 | A→G | 11.8% | 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 | 14.3% | 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 | 10.8% | pseudogene (886/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,132 | C→T | 8.7% | pseudogene (852/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,150 | C→T | 5.5% | pseudogene (834/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,627 | A→G | 7.0% | pseudogene (357/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,648 | G→C | 6.3% | pseudogene (336/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,426,103 | C→T | 5.1% | A933V (GCT→GTT) | stfR → | Rac prophage; putative tail fiber protein |
| RA | 1,461,157 | T→C | 5.3% | pseudogene (1509/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,506,132 | G→T | 9.1% | A74A (GCG→GCT) | ydcS → | polyhydroxybutyrate (PHB) synthase, ABC transporter periplasmic binding protein homolog |
| RA | 1,515,170 | C→A | 14.3% | Q218K (CAA→AAA) | mcbR → | colanic acid and biofilm gene transcriptional regulator, MqsR‑controlled |
| RA | 1,526,984 | T→C | 6.8% | H304H (CAT→CAC) | ydcC → | H repeat‑associated putative transposase |
| RA | 1,536,438 | G→T | 7.1% | A137E (GCA→GAA) | narZ ← | nitrate reductase 2 (NRZ), alpha subunit |
| RA | 1,559,873 | C→A | 10.3% | A40S (GCC→TCC) | dosP ← | oxygen sensor, c‑di‑GMP phosphodiesterase, heme‑regulated; cold‑ and stationary phase‑induced bioflim regulator |
| RA | 1,566,159 | G→A | 9.0% | D48D (GAC→GAT) | gadB ← | glutamate decarboxylase B, PLP‑dependent |
| RA | 1,573,643 | G→T | 13.0% | intergenic (‑44/+247) | yddA ← / ← ydeM | putative multidrug transporter subunit of ABC superfamily, membrane component/ATP‑binding component/putative YdeN‑specific sulfatase‑maturating enzyme |
| RA | 1,607,360 | C→A | 6.8% | G50V (GGA→GTA) | glsB ← | glutaminase 2 |
| RA | 1,615,943 | G→A | 7.4% | A119T (GCC→ACC) | ydeE → | putative transporter |
| RA | 1,629,823 | A→G | 9.3% | G94G (GGT→GGC) | stfQ ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,710,327 | T→G | 7.6% | T385P (ACC→CCC) | tyrS ← | tyrosyl‑tRNA synthetase |
| RA | 1,753,155 | G→A | 6.8% | R131R (CGC→CGT) | sufE ← | sulfur acceptor protein |
| RA | 1,753,984 | G→T | 14.3% | T266N (ACC→AAC) | sufS ← | cysteine desulfurase, stimulated by SufE; selenocysteine lyase, PLP‑dependent |
| RA | 1,754,014 | A→T | 17.6% | I256N (ATC→AAC) | sufS ← | cysteine desulfurase, stimulated by SufE; selenocysteine lyase, PLP‑dependent |
| RA | 1,775,297 | C→A | 5.8% | H214N (CAC→AAC) | ydiR → | putative electron transfer flavoprotein, FAD‑binding subunit |
| RA | 1,779,455 | T→C | 10.7% | T639A (ACC→GCC) | ppsA ← | phosphoenolpyruvate synthase |
| RA | 1,779,457 | A→T | 10.3% | L638Q (CTG→CAG) | ppsA ← | phosphoenolpyruvate synthase |
| RA | 1,872,384 | G→T | 10.9% | R138L (CGC→CTC) | yeaP → | diguanylate cyclase |
| RA | 1,885,557 | G→T | 10.8% | intergenic (‑33/+25) | tsaB ← / ← yoaA | tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; binding partner and protease for TsaD/putative ATP‑dependent helicase, DinG family |
| RA | 1,897,649 | C→A | 12.3% | A104D (GCT→GAT) | manY → | mannose‑specific enzyme IIC component of PTS |
| RA | 1,899,157 | C→A | 8.7% | L34M (CTG→ATG) | yobD → | UPF0266 family inner membrane protein |
| RA | 1,921,770 | C→A | 10.8% | G443* (GGA→TGA) | ptrB ← | protease II |
| RA | 1,961,475 | C→A | 9.1% | A74S (GCG→TCG) | cheY ← | chemotaxis regulator transmitting signal to flagellar motor component |
| JC JC | 1,972,762 | IS5 (–) +4 bp | 100% | intergenic (‑308/‑469) | flhD ← / → uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| RA | 2,024,298 | C→A | 18.2% | G34G (GGG→GGT) | vsr ← | DNA mismatch endonuclease of very short patch repair |
| RA | 2,051,528 | G→T | 8.1% | noncoding (56/76 nt) | asnW ← | tRNA‑Asn |
| RA | 2,057,140 | G→T | 7.3% | A270D (GCT→GAT) | cobT ← | nicotinate‑nucleotide‑‑dimethylbenzimidazole phosphoribosyltransferase |
| RA | 2,057,562 | C→A | 5.4% | M129I (ATG→ATT) | cobT ← | nicotinate‑nucleotide‑‑dimethylbenzimidazole phosphoribosyltransferase |
| RA | 2,059,656 | T→C | 26.6% | intergenic (‑21/+130) | yeeH ← / ← insH1 | pseudogene/IS5 transposase and trans‑activator |
| RA | 2,071,132 | G→T | 5.6% | R28L (CGA→CTA) | cbtA → | CP4‑44 prophage; toxin of the YeeV‑YeeU toxin‑antitoxin system |
| RA | 2,109,355 | C→A | 12.6% | R8L (CGA→CTA) | wcaM ← | colanic acid biosynthesis protein |
| RA | 2,153,736 | C→A | 10.5% | Q624K (CAG→AAG) | mdtC → | multidrug efflux system, subunit C |
| RA | 2,156,553 | G→A | 5.7% | G66D (GGC→GAC) | baeS → | sensory histidine kinase in two‑component regulatory system with BaeR |
| RA | 2,170,713 | C→A | 29.2% | intergenic (‑30/+278) | gatY ← / ← fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| RA | 2,175,410 | T→A | 6.3% | L279Q (CTG→CAG) | yegV → | putative kinase |
| RA | 2,191,132 | G→C | 6.5% | pseudogene (1180/2847 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 | 2,192,007 | C→T | 6.8% | pseudogene (2055/2847 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 | 2,246,492 | G→A | 6.7% | A378V (GCG→GTG) | nupX ← | nucleoside permease |
| RA | 2,246,514 | C→A | 8.8% | V371L (GTG→TTG) | nupX ← | nucleoside permease |
| RA | 2,256,715 | C→T | 5.3% | W87* (TGG→TAG) | fruB ← | fused fructose‑specific PTS enzymes: IIA component/HPr component |
| RA | 2,345,149 | C→A | 6.8% | A235A (GCG→GCT) | glpT ← | sn‑glycerol‑3‑phosphate transporter |
| RA | 2,348,012 | A→G | 5.8% | Q90R (CAG→CGG) | glpB → | sn‑glycerol‑3‑phosphate dehydrogenase (anaerobic), membrane anchor subunit |
| RA | 2,353,226 | G→A | 6.4% | R136C (CGT→TGT) | rhmT ← | putative L‑rhamnonate transporter |
| RA | 2,353,337 | C→T | 5.6% | A99T (GCA→ACA) | rhmT ← | putative L‑rhamnonate transporter |
| RA | 2,367,571 | T→C | 9.8% | E304E (GAA→GAG) | menE ← | O‑succinylbenzoate‑CoA ligase |
| RA | 2,421,189 | C→T | 11.4% | V28I (GTA→ATA) | argT ← | lysine/arginine/ornithine transporter subunit |
| RA | 2,438,137 | C→A | 8.5% | E32* (GAA→TAA) | epmC ← | Elongation Factor P Lys34 hydroxylase |
| RA | 2,445,616 | T→C | 6.2% | D67G (GAT→GGT) | yfcS ← | putative periplasmic pilin chaperone |
| RA | 2,505,917:1 | +G | 14.0% | coding (269/1239 nt) | mntH ← | manganese/divalent cation transporter |
| RA | 2,505,917:2 | +A | 14.0% | coding (269/1239 nt) | mntH ← | manganese/divalent cation transporter |
| RA | 2,505,917:3 | +T | 14.0% | coding (269/1239 nt) | mntH ← | manganese/divalent cation transporter |
| RA | 2,505,917:4 | +A | 14.0% | coding (269/1239 nt) | mntH ← | manganese/divalent cation transporter |
| RA | 2,552,763 | G→A | 9.1% | V183I (GTT→ATT) | intZ → | CPZ‑55 prophage; putative phage integrase |
| RA | 2,562,475 | C→A | 7.0% | P132P (CCG→CCT) | eutG ← | ethanol dehydrogenase involved in ethanolamine utilization; aldehyde reductase, converts acetaldehyde to ethanol |
| RA | 2,577,104 | C→A | 6.4% | G594V (GGT→GTT) | aegA ← | putative oxidoreductase, FeS binding subunit/NAD/FAD‑binding subunit |
| RA | 2,585,775 | Δ1 bp | 9.8% | coding (810/1128 nt) | dapE → | N‑succinyl‑diaminopimelate deacylase |
| RA | 2,585,776 | Δ1 bp | 9.8% | coding (811/1128 nt) | dapE → | N‑succinyl‑diaminopimelate deacylase |
| RA | 2,585,777 | Δ1 bp | 9.8% | coding (812/1128 nt) | dapE → | N‑succinyl‑diaminopimelate deacylase |
| RA | 2,585,778 | Δ1 bp | 9.5% | coding (813/1128 nt) | dapE → | N‑succinyl‑diaminopimelate deacylase |
| RA | 2,585,779 | Δ1 bp | 9.5% | coding (814/1128 nt) | dapE → | N‑succinyl‑diaminopimelate deacylase |
| RA | 2,585,780 | Δ1 bp | 9.5% | coding (815/1128 nt) | dapE → | N‑succinyl‑diaminopimelate deacylase |
| RA | 2,585,781 | Δ1 bp | 9.5% | coding (816/1128 nt) | dapE → | N‑succinyl‑diaminopimelate deacylase |
| RA | 2,585,782 | Δ1 bp | 9.3% | coding (817/1128 nt) | dapE → | N‑succinyl‑diaminopimelate deacylase |
| RA | 2,585,786 | Δ1 bp | 9.3% | coding (821/1128 nt) | dapE → | N‑succinyl‑diaminopimelate deacylase |
| RA | 2,586,089 | C→T | 8.3% | A375V (GCC→GTC) | dapE → | N‑succinyl‑diaminopimelate deacylase |
| RA | 2,591,881 | G→T | 6.9% | T115N (ACT→AAT) | bamC ← | BamABCDE complex OM biogenesis lipoprotein |
| RA | 2,665,486 | C→T | 11.1% | F27F (TTC→TTT) | hcaD → | phenylpropionate dioxygenase, ferredoxin reductase subunit |
| RA | 2,699,841 | C→A | 8.7% | G215C (GGC→TGC) | lepA ← | back‑translocating elongation factor EF4, GTPase |
| RA | 2,706,534 | G→T | 8.2% | D94Y (GAT→TAT) | srmB → | ATP‑dependent RNA helicase |
| RA | 2,719,426 | T→C | 13.9% | intergenic (‑321/+2) | kgtP ← / ← rrfG | alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon |
| RA | 2,722,607 | A→G | 10.7% | intergenic (‑64/+121) | rrlG ← / ← gltW | 23S ribosomal RNA of rrnG operon/tRNA‑Glu |
| RA | 2,728,236 | C→A | 6.4% | R53L (CGA→CTA) | yfiH ← | UPF0124 family protein |
| RA | 2,740,702 | C→T | 9.5% | L151L (CTG→CTA) | ffh ← | Signal Recognition Particle (SRP) component with 4.5S RNA (ffs) |
| RA | 2,762,982 | C→T | 9.1% | intergenic (+137/‑80) | yfjQ → / → yfjR | CP4‑57 prophage; uncharacterized protein/CP4‑57 prophage; putative DNA‑binding transcriptional regulator |
| RA | 2,762,984 | T→G | 9.8% | intergenic (+139/‑78) | yfjQ → / → yfjR | CP4‑57 prophage; uncharacterized protein/CP4‑57 prophage; putative DNA‑binding transcriptional regulator |
| RA | 2,771,529 | T→C | 14.7% | V1519V (GTA→GTG) | ypjA ← | adhesin‑like autotransporter |
| RA | 2,771,561 | T→C | 10.5% | S1509G (AGT→GGT) | ypjA ← | adhesin‑like autotransporter |
| RA | 2,776,831 | C→A | 6.0% | intergenic (‑168/+166) | pinH ← / ← ypjC | pseudogene, invertase resolvase family/pseudogene |
| RA | 2,783,404 | G→T | 12.5% | D22Y (GAT→TAT) | lhgO → | L‑2‑hydroxyglutarate oxidase |
| RA | 2,877,140 | C→A | 7.7% | G120W (GGG→TGG) | casA ← | CRISP RNA (crRNA) containing Cascade antiviral complex protein |
| RA | 2,913,103 | A→T | 7.6% | W335R (TGG→AGG) | gudX ← | glucarate dehydratase‑related protein, substrate unknown |
| RA | 2,913,768 | G→A | 5.4% | A113V (GCG→GTG) | gudX ← | glucarate dehydratase‑related protein, substrate unknown |
| RA | 3,003,245 | G→A | 6.0% | A375T (GCA→ACA) | ygeY → | putative peptidase |
| RA | 3,021,522 | C→T | 6.4% | A348V (GCG→GTG) | ygfQ → | putative purine permease |
| RA | 3,082,446 | C→A | 10.0% | N268K (AAC→AAA) | galP → | D‑galactose transporter |
| RA | 3,095,411 | G→T | 7.6% | R28R (CGA→AGA) | yggL ← | DUF469 family protein |
| RA | 3,103,780 | A→C | 13.8% | noncoding (56/76 nt) | pheV → | tRNA‑Phe |
| RA | 3,107,010 | G→T | 10.3% | C234* (TGC→TGA) | pppA ← | bifunctional prepilin leader peptidase/ methylase |
| RA | 3,110,375 | Δ1 bp | 7.1% | coding (2097/4563 nt) | yghJ ← | DUF4092 family putative lipoprotein peptidase |
| RA | 3,110,377 | Δ1 bp | 7.1% | coding (2095/4563 nt) | yghJ ← | DUF4092 family putative lipoprotein peptidase |
| RA | 3,110,378 | T→G | 8.0% | A698A (GCA→GCC) | yghJ ← | DUF4092 family putative lipoprotein peptidase |
| RA | 3,110,383 | Δ1 bp | 7.4% | coding (2089/4563 nt) | yghJ ← | DUF4092 family putative lipoprotein peptidase |
| RA | 3,147,721 | C→A | 9.2% | G286V (GGC→GTC) | yqhC ← | transcriptional activator of yqhD |
| RA | 3,163,361 | G→T | 7.4% | G59C (GGT→TGT) | qseB → | quorum sensing DNA‑binding response regulator in two‑component regulatory system with QseC |
| RA | 3,172,850 | G→T | 6.8% | Q459H (CAG→CAT) | tolC → | transport channel |
| RA | 3,185,780 | C→A | 9.9% | L72I (CTC→ATC) | yqiJ → | DUF1449 family inner membrane protein |
| RA | 3,200,508 | A→G | 10.7% | E229E (GAA→GAG) | ttdA → | L‑tartrate dehydratase, alpha subunit |
| RA | 3,209,322 | G→A | 11.1% | R177W (CGG→TGG) | yqjH ← | putative siderophore interacting protein |
| RA | 3,278,281 | C→T | 7.8% | L80L (CTG→TTG) | agaC → | N‑acetylgalactosamine‑specific enzyme IIC component of PTS |
| RA | 3,289,733 | C→T | 8.2% | T189M (ACG→ATG) | diaA → | DnaA initiator‑associating factor for replication initiation |
| RA | 3,296,721 | G→T | 8.1% | A292S (GCC→TCC) | yhbV → | U32 peptidase family protein |
| RA | 3,311,602 | T→C | 7.6% | noncoding (47/77 nt) | metY ← | tRNA‑Met |
| RA | 3,323,798 | G→T | 17.1% | intergenic (+43/+143) | dacB → / ← obgE | D‑alanyl‑D‑alanine carboxypeptidase/GTPase involved in cell partioning and DNA repair |
| RA | 3,347,180 | G→T | 6.8% | A77D (GCT→GAT) | yhcC ← | putative Fe‑S oxidoreductase, Radical SAM superfamily protein |
| RA | 3,376,247 | Δ1 bp | 7.8% | coding (689/1068 nt) | degS → | serine endoprotease, periplasmic |
| RA | 3,416,890 | T→G | 12.8% | noncoding (12/120 nt) | rrfF ← | 5S ribosomal RNA of rrnD operon |
| RA | 3,416,899 | A→G | 23.7% | noncoding (3/120 nt) | rrfF ← | 5S ribosomal RNA of rrnD operon |
| RA | 3,508,693 | Δ1 bp | 11.1% | coding (580/837 nt) | dam ← | DNA adenine methyltransferase |
| RA | 3,508,697 | Δ1 bp | 11.1% | coding (576/837 nt) | dam ← | DNA adenine methyltransferase |
| RA | 3,508,698 | Δ1 bp | 11.1% | coding (575/837 nt) | dam ← | DNA adenine methyltransferase |
| RA | 3,508,699 | Δ1 bp | 11.1% | coding (574/837 nt) | dam ← | DNA adenine methyltransferase |
| RA | 3,508,703 | Δ1 bp | 10.8% | coding (570/837 nt) | dam ← | DNA adenine methyltransferase |
| RA | 3,508,704 | Δ1 bp | 10.8% | coding (569/837 nt) | dam ← | DNA adenine methyltransferase |
| RA | 3,508,706 | Δ1 bp | 6.9% | coding (567/837 nt) | dam ← | DNA adenine methyltransferase |
| RA | 3,508,707 | Δ1 bp | 6.9% | coding (566/837 nt) | dam ← | DNA adenine methyltransferase |
| RA | 3,508,708 | Δ1 bp | 7.0% | coding (565/837 nt) | dam ← | DNA adenine methyltransferase |
| RA | 3,508,709 | Δ1 bp | 7.0% | coding (564/837 nt) | dam ← | DNA adenine methyltransferase |
| RA | 3,530,255 | G→T | 12.0% | V29F (GTC→TTC) | greB → | transcript cleavage factor |
| RA | 3,543,417 | G→T | 5.0% | R5S (CGT→AGT) | malQ ← | 4‑alpha‑glucanotransferase (amylomaltase) |
| RA | 3,553,774 | G→T | 11.8% | N64K (AAC→AAA) | glpR ← | GlpR DNA‑binding transcriptional repressor |
| RA | 3,556,156 | A→T | 5.5% | M262L (ATG→TTG) | glpD → | sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding |
| RA | 3,563,773 | C→A | 7.6% | G303C (GGC→TGC) | glgX ← | glycogen debranching enzyme |
| RA | 3,612,677 | A→G | 7.7% | G42G (GGA→GGG) | rhsB → | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor |
| RA | 3,614,459 | A→G | 5.6% | E636E (GAA→GAG) | rhsB → | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor |
| RA | 3,614,484 | C→A | 6.1% | R645S (CGC→AGC) | rhsB → | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor |
| RA | 3,615,780 | G→A | 5.1% | A1077T (GCC→ACC) | rhsB → | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor |
| RA | 3,616,121 | G→C | 5.4% | R1190R (CGG→CGC) | rhsB → | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor |
| RA | 3,637,326 | C→A | 7.5% | S406I (AGC→ATC) | prlC ← | oligopeptidase A |
| RA | 3,654,573 | G→A | 9.1% | R267H (CGC→CAC) | mdtF → | anaerobic multidrug efflux transporter, ArcA‑regulated |
| RA | 3,657,954 | G→T | 7.2% | L9I (CTC→ATC) | gadW ← | transcriptional activator of gadA and gadBC; repressor of gadX |
| RA | 3,711,206 | C→G | 8.9% | H179Q (CAC→CAG) | ghrB → | glyoxylate/hydroxypyruvate reductase B |
| RA | 3,711,208 | Δ1 bp | 8.9% | coding (539/975 nt) | ghrB → | glyoxylate/hydroxypyruvate reductase B |
| RA | 3,711,209 | Δ1 bp | 8.9% | coding (540/975 nt) | ghrB → | glyoxylate/hydroxypyruvate reductase B |
| RA | 3,711,214 | A→C | 10.5% | E182A (GAA→GCA) ‡ | ghrB → | glyoxylate/hydroxypyruvate reductase B |
| RA | 3,711,215 | A→C | 9.1% | E182D (GAA→GAC) ‡ | ghrB → | glyoxylate/hydroxypyruvate reductase B |
| RA | 3,711,216 | G→T | 9.1% | A183S (GCA→TCA) ‡ | ghrB → | glyoxylate/hydroxypyruvate reductase B |
| RA | 3,711,217 | C→T | 8.0% | A183V (GCA→GTA) ‡ | ghrB → | glyoxylate/hydroxypyruvate reductase B |
| RA | 3,732,791 | G→T | 5.0% | A645A (GCG→GCT) | malS → | alpha‑amylase |
| RA | 3,758,773 | G→C | 9.3% | A1077A (GCG→GCC) | rhsA → | Rhs family protein, putative polymorphic toxin; putative polysaccharide synthesis/export protein; putative neighboring cell growth inhibitor |
| RA | 3,758,917 | C→G | 7.5% | T1125T (ACC→ACG) | rhsA → | Rhs family protein, putative polymorphic toxin; putative polysaccharide synthesis/export protein; putative neighboring cell growth inhibitor |
| RA | 3,760,936 | T→A | 11.5% | pseudogene (356/945 nt) | rhsJ → | Rhs‑family protein |
| RA | 3,775,952 | G→C | 10.3% | intergenic (‑30/+50) | cysE ← / ← gpsA | serine acetyltransferase/glycerol‑3‑phosphate dehydrogenase (NAD+) |
| RA | 3,779,000 | C→T | 20.0% | H127H (CAC→CAT) | gpmM → | phosphoglycero mutase III, cofactor‑independent |
| RA | 3,783,695 | A→G | 5.2% | I337I (ATT→ATC) | tdh ← | L‑threonine 3‑dehydrogenase, NAD(P)‑binding |
| RA | 3,810,258 | C→A | 7.2% | Q75K (CAA→AAA) | yicC → | UPF0701 family protein |
| RA | 3,815,970 | C→T | 7.4% | L71L (CTG→TTG) | spoT → | bifunctional (p)ppGpp synthetase II/ guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
| RA | 3,822,105 | G→A | 14.8% | intergenic (‑80/‑200) | gltS ← / → xanP | glutamate transporter/xanthine permease |
| RA | 3,865,575 | C→T | 5.7% | A262T (GCG→ACG) | dgoD ← | galactonate dehydratase |
| RA | 3,868,484 | G→T | 10.9% | L13M (CTG→ATG) | dgoR ← | putative DNA‑binding transcriptional regulator |
| RA | 3,875,283 | T→C | 6.2% | A133A (GCA→GCG) | dnaN ← | DNA polymerase III, beta subunit |
| RA | 3,875,310 | A→G | 6.9% | S124S (AGT→AGC) | dnaN ← | DNA polymerase III, beta subunit |
| RA | 3,885,944 | G→A | 7.9% | A324T (GCG→ACG) | mdtL → | multidrug efflux system protein |
| RA | 3,888,770 | A→G | 100% | I400I (ATT→ATC) | purP ← | adenine permease, high affinity; adenine:H+ symporter |
| RA | 3,933,236 | G→T | 10.5% | A246E (GCA→GAA) | hsrA ← | putative multidrug or homocysteine efflux system |
| RA | 3,969,534 | C→T | 8.5% | T343T (ACC→ACT) | wecE → | TDP‑4‑oxo‑6‑deoxy‑D‑glucose transaminase |
| RA | 3,969,798 | C→T | 5.5% | A54V (GCC→GTC) | wzxE → | O‑antigen translocase |
| RA | 4,019,993 | Δ1 bp | 5.5% | coding (107/702 nt) | fre → | NAD(P)H‑flavin reductase |
| RA | 4,027,923 | G→T | 11.5% | L473L (CTG→CTT) | trkH → | potassium transporter |
| RA | 4,042,966 | C→A | 5.7% | H881N (CAC→AAC) | polA → | fused DNA polymerase I 5'‑>3' polymerase/3'‑>5' exonuclease/5'‑>3' exonuclease |
| RA | 4,076,011 | T→A | 7.0% | T37S (ACC→TCC) | fdoH ← | formate dehydrogenase‑O, Fe‑S subunit |
| RA | 4,076,021 | G→A | 5.3% | L33L (CTC→CTT) | fdoH ← | formate dehydrogenase‑O, Fe‑S subunit |
| RA | 4,076,027 | C→T | 5.3% | A31A (GCG→GCA) | fdoH ← | formate dehydrogenase‑O, Fe‑S subunit |
| RA | 4,076,030 | C→G | 5.4% | V30V (GTG→GTC) | fdoH ← | formate dehydrogenase‑O, Fe‑S subunit |
| RA | 4,140,793 | C→T | 8.0% | G745D (GGC→GAC) | ppc ← | phosphoenolpyruvate carboxylase |
| RA | 4,155,350 | C→A | 12.2% | T595K (ACA→AAA) | btuB → | vitamin B12/cobalamin outer membrane transporter |
| RA | 4,161,576 | A→C | 11.4% | noncoding (12/120 nt) | rrfB → | 5S ribosomal RNA of rrnB operon |
| RA | 4,175,353 | T→C | 6.8% | S26P (TCG→CCG) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,176,286 | C→A | 13.6% | R337S (CGT→AGT) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,178,209 | C→T | 18.4% | R978C (CGT→TGT) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,178,500 | C→T | 35.7% | R1075C (CGT→TGT) ‡ | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,178,501 | G→T | 16.7% | R1075L (CGT→CTT) ‡ | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,186,200 | C→T | 15.0% | intergenic (‑173/+60) | thiC ← / ← rsd | phosphomethylpyrimidine synthase/stationary phase protein, binds sigma 70 RNA polymerase subunit |
| RA | 4,202,970 | C→T | 13.3% | noncoding (3/120 nt) | rrfE → | 5S ribosomal RNA of rrnE operon |
| RA | 4,202,979 | A→C | 27.2% | noncoding (12/120 nt) | rrfE → | 5S ribosomal RNA of rrnE operon |
| RA | 4,243,914 | T→G | 7.3% | intergenic (+98/+57) | ubiA → / ← plsB | p‑hydroxybenzoate octaprenyltransferase/glycerol‑3‑phosphate O‑acyltransferase |
| RA | 4,243,916:1 | +A | 7.5% | intergenic (+100/+55) | ubiA → / ← plsB | p‑hydroxybenzoate octaprenyltransferase/glycerol‑3‑phosphate O‑acyltransferase |
| RA | 4,243,922 | A→T | 8.3% | intergenic (+106/+49) | ubiA → / ← plsB | p‑hydroxybenzoate octaprenyltransferase/glycerol‑3‑phosphate O‑acyltransferase |
| RA | 4,243,924 | G→T | 8.3% | intergenic (+108/+47) | ubiA → / ← plsB | p‑hydroxybenzoate octaprenyltransferase/glycerol‑3‑phosphate O‑acyltransferase |
| RA | 4,243,926 | A→T | 8.3% | intergenic (+110/+45) | ubiA → / ← plsB | p‑hydroxybenzoate octaprenyltransferase/glycerol‑3‑phosphate O‑acyltransferase |
| RA | 4,261,041 | G→T | 18.4% | T920K (ACG→AAG) | uvrA ← | ATPase and DNA damage recognition protein of nucleotide excision repair excinuclease UvrABC |
| RA | 4,315,782 | A→G | 5.7% | intergenic (‑224/+434) | yjdN ← / ← yjdM | metalloprotein superfamily protein/zinc‑ribbon family protein |
| RA | 4,315,805 | G→T | 6.0% | intergenic (‑247/+411) | yjdN ← / ← yjdM | metalloprotein superfamily protein/zinc‑ribbon family protein |
| RA | 4,315,808 | T→C | 6.0% | intergenic (‑250/+408) | yjdN ← / ← yjdM | metalloprotein superfamily protein/zinc‑ribbon family protein |
| RA | 4,315,812 | G→A | 6.3% | intergenic (‑254/+404) | yjdN ← / ← yjdM | metalloprotein superfamily protein/zinc‑ribbon family protein |
| RA | 4,340,125 | G→A | 13.8% | P452L (CCG→CTG) | dcuS ← | sensory histidine kinase in two‑component regulatory system with DcuR, regulator of anaerobic fumarate respiration |
| RA | 4,357,010 | G→A | 8.5% | L379L (CTG→TTG) | aspA ← | aspartate ammonia‑lyase |
| RA | 4,365,220 | Δ1 bp | 13.8% | coding (255/1029 nt) | epmB ← | EF‑P‑Lys34 lysylation protein; weak lysine 2,3‑aminomutase |
| RA | 4,365,222 | T→A | 13.5% | I85F (ATC→TTC) | epmB ← | EF‑P‑Lys34 lysylation protein; weak lysine 2,3‑aminomutase |
| RA | 4,365,223 | G→C | 13.4% | V84V (GTC→GTG) ‡ | epmB ← | EF‑P‑Lys34 lysylation protein; weak lysine 2,3‑aminomutase |
| RA | 4,365,225 | C→T | 13.8% | V84I (GTC→ATC) ‡ | epmB ← | EF‑P‑Lys34 lysylation protein; weak lysine 2,3‑aminomutase |
| RA | 4,365,227 | A→T | 13.8% | F83Y (TTT→TAT) ‡ | epmB ← | EF‑P‑Lys34 lysylation protein; weak lysine 2,3‑aminomutase |
| RA | 4,365,228 | A→G | 13.8% | F83L (TTT→CTT) ‡ | epmB ← | EF‑P‑Lys34 lysylation protein; weak lysine 2,3‑aminomutase |
| RA | 4,365,229 | C→G | 13.3% | E82D (GAG→GAC) ‡ | epmB ← | EF‑P‑Lys34 lysylation protein; weak lysine 2,3‑aminomutase |
| RA | 4,365,231 | C→G | 13.8% | E82Q (GAG→CAG) ‡ | epmB ← | EF‑P‑Lys34 lysylation protein; weak lysine 2,3‑aminomutase |
| RA | 4,365,234 | C→T | 13.3% | D81N (GAT→AAT) | epmB ← | EF‑P‑Lys34 lysylation protein; weak lysine 2,3‑aminomutase |
| RA | 4,365,235 | T→G | 13.4% | Q80H (CAA→CAC) ‡ | epmB ← | EF‑P‑Lys34 lysylation protein; weak lysine 2,3‑aminomutase |
| RA | 4,365,236 | T→G | 13.3% | Q80P (CAA→CCA) ‡ | epmB ← | EF‑P‑Lys34 lysylation protein; weak lysine 2,3‑aminomutase |
| RA | 4,414,531 | G→T | 11.4% | N26K (AAC→AAA) | yjfY ← | YhcN family protein, periplasmic |
| RA | 4,421,544 | C→T | 5.9% | R86H (CGT→CAT) | ytfE ← | iron‑sulfur cluster repair protein RIC |
| RA | 4,422,513 | C→T | 6.1% | A121T (GCG→ACG) | ytfF ← | DMT transporter family inner membrane protein |
| RA | 4,446,348 | G→A | 18.2% | A249A (GCG→GCA) | mpl → | UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase |
| RA | 4,477,149 | C→T | 11.8% | G5G (GGC→GGT) | lptG → | lipopolysaccharide export ABC permease of the LptBFGC export complex |
| RA | 4,508,750 | G→T | 5.9% | pseudogene (213/504 nt) | insB1 → | IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 4,521,913 | G→T | 10.5% | pseudogene (215/261 nt) | yjhY ← | pseudogene, zinc finger protein family |
| RA | 4,538,573 | G→A | 5.4% | A158T (GCA→ACA) | fimG → | minor component of type 1 fimbriae |
| RA | 4,547,055 | G→T | 6.3% | A82A (GCG→GCT) | iraD → | RpoS stabilzer after DNA damage, anti‑RssB factor |
| RA | 4,570,124 | C→A | 9.8% | E386* (GAG→TAG) | hsdS ← | specificity determinant for hsdM and hsdR |
| RA | 4,595,985 | A→T | 11.4% | intergenic (‑3/+32) | leuV ← / ← leuP | tRNA‑Leu/tRNA‑Leu |
| RA | 4,604,195 | A→G | 8.0% | intergenic (+118/+302) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| RA | 4,604,414 | T→C | 7.8% | intergenic (+337/+83) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| RA | 4,604,415:1 | +T | 9.8% | intergenic (+338/+82) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| RA | 4,604,421 | Δ1 bp | 8.3% | intergenic (+344/+76) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| RA | 4,604,422 | A→G | 12.5% | intergenic (+345/+75) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| RA | 4,604,439 | Δ1 bp | 8.3% | intergenic (+362/+58) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| RA | 4,604,441 | G→A | 13.4% | intergenic (+364/+56) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| RA | 4,604,455 | G→T | 7.1% | intergenic (+378/+42) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| RA | 4,604,463 | A→G | 7.4% | intergenic (+386/+34) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| RA | 4,604,466 | C→T | 7.4% | intergenic (+389/+31) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 454338 | 456680 | 2343 | 6 [3] | [3] 14 | [lon] | [lon] |
| * | * | ÷ | CP009273 | 2027277 | 2027418 | 142 | 7 [3] | [5] 6 | rseX/yedS | sRNA antisense regulator of ompA and ompC translation, Hfq‑dependent/pseudogene, outer membrane protein homology; putative outer membrane protein |
| * | * | ÷ | CP009273 | 2463086 | 2463238 | 153 | 6 [5] | [4] 6 | gtrS | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| * | * | ÷ | CP009273 | 3763087 | 3763229 | 143 | 6 [5] | [4] 6 | [yibV] | [yibV] |
| * | * | ÷ | CP009273 | 3797697 | 3797898 | 202 | 7 [5] | [3] 6 | waaS | lipopolysaccharide core biosynthesis protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 111951 = | 80 (1.830) | 4 (0.090) | 3/244 | NT | 5.9% | coding (261/1203 nt) | hofC | assembly protein in type IV pilin biogenesis, transmembrane protein |
| ? | CP009273 | = 112133 | 50 (1.160) | coding (79/1203 nt) | hofC | assembly protein in type IV pilin biogenesis, transmembrane protein | |||||
| * | ? | CP009273 | 360104 = | 25 (0.570) | 35 (0.800) | 23/248 | NT | 58.3% | 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 | 69 (2.180) | 10 (0.350) | 6/162 | NT | 13.9% | 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 | 1203246 = | 5 (0.110) | 23 (0.600) | 14/216 | NT | 73.8% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 12 (0.320) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 7 (0.160) | 16 (0.420) | 8/216 | NT | 63.9% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 12 (0.320) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||