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 | 2,246 | C→A | 9.5% | S637Y (TCT→TAT) | thrA → | Bifunctional aspartokinase/homoserine dehydrogenase 1 |
| RA | 14,995 | G→T | 5.4% | L276L (CTG→CTT) | dnaJ → | chaperone Hsp40, DnaK co‑chaperone |
| RA | 37,858 | G→T | 5.9% | intergenic (‑34/+40) | caiC ← / ← caiB | putative crotonobetaine/carnitine‑CoA ligase/crotonobetainyl CoA:carnitine CoA transferase |
| RA | 56,580 | G→T | 6.6% | S177Y (TCT→TAT) | lptD ← | LPS assembly OM complex LptDE, beta‑barrel component |
| RA | 72,085 | C→A | 5.2% | intergenic (‑118/+46) | thiB ← / ← sgrR | thiamine‑, thiamine pyrophosphate‑, thiamine monophosphate‑binding ABC transporter periplasmic protein; ThiBPQ thiamine, thiamine pyrophosphate importer/transcriptional DNA‑binding transcriptional activator of sgrS sRNA |
| RA | 81,818 | A→G | 8.7% | intergenic (+19/‑299) | leuO → / → ilvI | global transcription factor/acetolactate synthase 3 large subunit |
| RA | 85,369 | G→A | 5.3% | P285P (CCG→CCA) | cra → | transcriptional repressor‑activator for carbon metabolism |
| RA | 103,901 | C→A | 7.0% | T286T (ACC→ACA) | lpxC → | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase |
| RA | 117,751 | G→T | 6.0% | G96G (GGC→GGA) | aroP ← | aromatic amino acid transporter |
| RA | 121,793 | G→T | 5.8% | E764* (GAG→TAG) | aceE → | pyruvate dehydrogenase, decarboxylase component E1, thiamine triphosphate‑binding |
| RA | 143,414 | G→T | 6.1% | intergenic (‑233/‑41) | panD ← / → yadD | aspartate 1‑decarboxylase/transposase_31 family protein |
| RA | 158,750 | G→T | 6.6% | L53L (CTG→CTT) | hrpB → | putative ATP‑dependent helicase |
| RA | 181,751 | C→A | 7.0% | P228P (CCG→CCT) | dapD ← | 2,3,4,5‑tetrahydropyridine‑2‑carboxylate N‑succinyltransferase |
| RA | 215,091 | G→T | 5.9% | R58S (CGT→AGT) | proS ← | prolyl‑tRNA synthetase |
| RA | 221,333 | T→C | 6.5% | noncoding (1076/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,338 | A→G | 5.8% | noncoding (1081/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,373:1 | +G | 7.0% | noncoding (1116/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,380 | T→A | 7.2% | noncoding (1123/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,390 | Δ1 bp | 6.9% | noncoding (1133/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,391 | G→A | 6.9% | noncoding (1134/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,393 | C→T | 7.1% | noncoding (1136/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,395 | G→A | 7.1% | noncoding (1138/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,397 | C→T | 7.4% | noncoding (1140/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,398 | C→T | 7.8% | noncoding (1141/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,402 | A→C | 8.3% | noncoding (1145/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,407 | A→T | 8.8% | noncoding (1150/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,412 | A→T | 9.6% | noncoding (1155/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,420 | A→G | 9.5% | noncoding (1163/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,425 | T→C | 13.0% | noncoding (1168/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,430 | T→C | 12.9% | noncoding (1173/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 221,455 | G→A | 12.1% | noncoding (1198/1542 nt) | rrsH → | 16S ribosomal RNA of rrnH operon |
| RA | 246,847 | G→T | 6.9% | pseudogene (289/756 nt) | lafU → | pseudogene, lateral flagellar motor protein fragment |
| RA | 246,848 | G→T | 10.3% | pseudogene (290/756 nt) | lafU → | pseudogene, lateral flagellar motor protein fragment |
| RA | 249,874 | G→C | 7.0% | intergenic (+226/‑92) | yafP → / → ykfJ | putative acyl‑CoA transferase/pseudogene |
| RA | 249,908 | A→G | 9.6% | intergenic (+260/‑58) | yafP → / → ykfJ | putative acyl‑CoA transferase/pseudogene |
| RA | 261,370 | C→A | 7.5% | E143D (GAG→GAT) | ykfB ← | CP4‑6 prophage; uncharacterized protein |
| RA | 263,285 | G→A | 5.3% | D144D (GAC→GAT) | yafZ ← | CP4‑6 prophage; conserved protein |
| RA | 272,792 | G→T | 6.3% | G123W (GGG→TGG) | mmuM → | CP4‑6 prophage; S‑methylmethionine:homocysteine methyltransferase |
| RA | 274,938 | T→A | 14.7% | Q152L (CAG→CTG) | insB1 ← | IS1 transposase B |
| RA | 334,782 | G→T | 10.1% | T249T (ACG→ACT) | yahG → | DUF1116 family protein |
| RA | 357,678 | G→T | 5.6% | P405T (CCG→ACG) | lacY ← | lactose permease |
| RA | 370,556:1 | +C | 6.6% | intergenic (+219/‑359) | mhpE → / → mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| RA | 370,557 | T→A | 6.6% | intergenic (+220/‑358) | mhpE → / → mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| RA | 370,558 | T→A | 6.4% | intergenic (+221/‑357) | mhpE → / → mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| RA | 371,378 | C→T | 5.1% | A155V (GCG→GTG) | mhpT → | 3‑hydroxyphenylpropionic transporter |
| RA | 372,807 | Δ1 bp | 7.6% | intergenic (+40/+184) | yaiL → / ← frmB | DUF2058 family protein/S‑formylglutathione hydrolase |
| RA | 372,808 | G→A | 7.6% | intergenic (+41/+183) | yaiL → / ← frmB | DUF2058 family protein/S‑formylglutathione hydrolase |
| RA | 383,233 | C→A | 7.4% | P269P (CCC→CCA) | tauC → | taurine transporter subunit |
| RA | 383,649 | G→T | 8.7% | A133A (GCG→GCT) | tauD → | taurine dioxygenase, 2‑oxoglutarate‑dependent |
| RA | 384,096 | G→T | 5.9% | A282A (GCG→GCT) | tauD → | taurine dioxygenase, 2‑oxoglutarate‑dependent |
| RA | 404,674 | G→T | 8.4% | R268S (CGT→AGT) | rdgC ← | nucleoid‑associated ssDNA and dsDNA binding protein; competitive inhibitor of RecA function |
| RA | 410,144 | C→A | 6.1% | D356Y (GAC→TAC) | sbcC ← | exonuclease, dsDNA, ATP‑dependent |
| RA | 422,038 | C→A | 6.0% | P149H (CCT→CAT) | tgt → | tRNA‑guanine transglycosylase |
| RA | 502,079 | C→A | 11.9% | D154Y (GAT→TAT) | ybaK ← | Cys‑tRNA(Pro)/Cys‑tRNA(Cys) deacylase |
| RA | 510,340 | T→C | 6.1% | D297G (GAC→GGC) | qmcA ← | PHB domain membrane‑anchored putative protease |
| RA | 519,279 | G→T | 6.9% | W188L (TGG→TTG) | rhsD → | Rhs family putative polymorphic toxin |
| RA | 551,543 | C→A | 6.9% | W156L (TGG→TTG) | ybcI ← | DUF457 family inner membrane protein |
| RA | 551,682 | C→A | 7.5% | G110C (GGT→TGT) | ybcI ← | DUF457 family inner membrane protein |
| RA | 552,558 | C→A | 7.0% | G214C (GGC→TGC) | folD ← | bifunctional 5,10‑methylene‑tetrahydrofolate dehydrogenase/ 5,10‑methylene‑tetrahydrofolate cyclohydrolase |
| RA | 573,883 | G→C | 5.6% | T107T (ACG→ACC) R34P (CGG→CCG) |
rzpD → rzoD → |
DLP12 prophage; putative murein endopeptidase DLP12 prophage; putative lipoprotein |
| RA | 584,340 | G→T | 5.5% | Q691K (CAG→AAG) | nfrA ← | bacteriophage N4 receptor, outer membrane subunit |
| RA | 592,235 | C→A | 6.0% | Q394K (CAG→AAG) | cusC → | copper/silver efflux system, outer membrane component |
| RA | 611,322 | C→A | 7.4% | P570P (CCC→CCA) | entF → | enterobactin synthase multienzyme complex component, ATP‑dependent |
| RA | 628,822 | C→A | 7.8% | V38L (GTG→TTG) | ybdH ← | putative oxidoreductase |
| RA | 661,028 | C→A | 6.3% | G248C (GGC→TGC) | mrdB ← | cell wall shape‑determining protein |
| RA | 676,071 | A→G | 7.3% | E135G (GAG→GGG) | djlC → | J domain‑containing HscC co‑chaperone; Hsc56 |
| RA | 681,730 | G→T | 6.2% | A132A (GCC→GCA) | gltJ ← | glutamate, aspartate ABC transporter permease subunit |
| RA | 695,621 | G→T | 6.1% | N54K (AAC→AAA) | umpH ← | UMP phosphatase |
| RA | 695,660 | C→A | 5.9% | L41L (CTG→CTT) | umpH ← | UMP phosphatase |
| RA | 695,741 | C→A | 7.3% | L14L (CTG→CTT) | umpH ← | UMP phosphatase |
| RA | 706,553 | C→A | 8.9% | A123A (GCG→GCT) | fldA ← | flavodoxin 1 |
| RA | 709,459 | C→A | 6.2% | P149Q (CCG→CAG) | pgm → | phosphoglucomutase |
| RA | 720,256 | G→T | 6.0% | T60T (ACC→ACA) | kdpC ← | potassium translocating ATPase, subunit C |
| RA | 726,100 | A→G | 6.5% | R354R (CGA→CGG) | rhsC → | Rhs family putative polymorphic toxin |
| RA | 732,050 | C→T | 5.3% | pseudogene (150/240 nt) | ybfQ → | pseudogene, H repeat‑associated protein |
| RA | 758,706 | G→T | 8.7% | K79N (AAG→AAT) | sucC → | succinyl‑CoA synthetase, beta subunit |
| RA | 762,555 | C→A | 6.1% | A372A (GCC→GCA) | mngA → | fused 2‑O‑a‑mannosyl‑D‑glycerate specific PTS enzymes: IIA component/IIB component/IIC component |
| RA | 769,751 | C→A | 5.0% | Q34K (CAA→AAA) | cydX → | cytochrome d (bd‑I) ubiquinol oxidase subunit X |
| RA | 778,047 | G→T | 6.0% | L169F (TTG→TTT) | nadA → | quinolinate synthase, subunit A |
| RA | 778,536 | G→T | 5.4% | L332L (CTG→CTT) | nadA → | quinolinate synthase, subunit A |
| RA | 797,839 | C→A | 5.1% | S166Y (TCC→TAC) | ybhI → | putative transporter |
| RA | 809,978 | G→T | 10.0% | G333W (GGG→TGG) | uvrB → | excinulease of nucleotide excision repair, DNA damage recognition component |
| RA | 815,555 | G→A | 8.1% | V72V (GTG→GTA) | ybhL → | UPF0005 family inner membrane protein |
| RA | 820,118 | G→T | 9.0% | T11T (ACG→ACT) | ybhQ → | inner membrane protein |
| RA | 827,767 | G→T | 9.4% | intergenic (+75/+157) | rhlE → / ← ybiA | ATP‑dependent RNA helicase/DUF1768 family protein |
| RA | 829,188 | G→T | 12.6% | V221V (GTG→GTT) | dinG → | ATP‑dependent DNA helicase |
| RA | 836,788 | G→T | 6.1% | P67Q (CCG→CAG) | fiu ← | catecholate siderophore receptor Fiu |
| RA | 842,571 | T→C | 6.0% | Q2R (CAG→CGG) | glnP ← | glutamine transporter subunit |
| RA | 845,543 | G→T | 7.3% | S4* (TCA→TAA) | rhtA ← | threonine and homoserine efflux system |
| RA | 871,951 | G→T | 9.0% | S387S (TCG→TCT) | yliF → | putative membrane‑anchored diguanylate cyclase |
| RA | 879,433 | C→T | 7.0% | A102V (GCG→GTG) | mdfA → | multidrug efflux system protein |
| RA | 898,384 | C→A | 5.8% | E21* (GAA→TAA) | artI ← | arginine transporter subunit |
| RA | 913,805 | G→T | 7.3% | L258M (CTG→ATG) | ybjX ← | DUF535 family protein |
| RA | 918,948 | G→T | 6.2% | D77Y (GAC→TAC) | clpA → | ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity |
| RA | 922,710 | G→T | 7.3% | S60* (TCG→TAG) | aat ← | leucyl/phenylalanyl‑tRNA‑protein transferase |
| RA | 927,060 | A→G | 7.4% | V149V (GTT→GTC) | trxB ← | thioredoxin reductase, FAD/NAD(P)‑binding |
| RA | 954,950 | G→T | 5.9% | G228V (GGG→GTG) | aroA → | 5‑enolpyruvylshikimate‑3‑phosphate synthetase |
| RA | 967,444 | G→T | 7.8% | M79I (ATG→ATT) | ycbJ → | protein kinase‑like domain protein |
| RA | 969,800 | C→A | 6.3% | P9H (CCC→CAC) | mukF → | chromosome condensin MukBEF, kleisin‑like subunit, binds calcium |
| RA | 987,444 | C→A | 7.5% | P456Q (CCG→CAG) | pepN → | aminopeptidase N |
| RA | 1,012,559 | C→A | 13.3% | A399A (GCG→GCT) | ycbZ ← | putative peptidase |
| RA | 1,018,497 | C→A | 5.0% | Q281H (CAG→CAT) | yccS ← | putative transporter, FUSC superfamily inner membrane protein, tandem domains |
| RA | 1,027,508 | G→T | 6.6% | intergenic (‑340/‑87) | serT ← / → hyaA | tRNA‑Ser/hydrogenase 1, small subunit |
| RA | 1,037,805 | G→T | 7.6% | P621Q (CCG→CAG) | etk ← | tyrosine‑protein kinase, role in O‑antigen capsule formation |
| RA | 1,045,283 | T→G | 6.7% | intergenic (‑83/‑6) | gfcA ← / → insA | O‑antigen capsule production threonine‑rich inner membrane protein/IS1 repressor TnpA |
| RA | 1,063,690 | C→A | 10.7% | H52N (CAC→AAC) | ymdF → | KGG family protein |
| RA | 1,069,156 | G→T | 6.8% | A104A (GCC→GCA) | rutA ← | pyrimidine oxygenase, FMN‑dependent |
| RA | 1,069,333 | G→T | 8.9% | T45T (ACC→ACA) | rutA ← | pyrimidine oxygenase, FMN‑dependent |
| RA | 1,120,563 | C→A | 6.6% | G74C (GGT→TGT) | mdtH ← | multidrug resistance efflux transporter conferring overexpression resistance to norfloxacin and enoxacin |
| RA | 1,121,695 | C→A | 7.7% | P28Q (CCG→CAG) | yceH → | UPF0502 family protein |
| RA | 1,124,505 | C→A | 11.9% | P404Q (CCG→CAG) | murJ → | putative peptidoglycan lipid II flippase |
| RA | 1,132,561 | G→T | 6.2% | G278W (GGG→TGG) | flgI → | putative flagellar basal body protein |
| RA | 1,132,590 | G→T | 6.6% | Q287H (CAG→CAT) | flgI → | putative flagellar basal body protein |
| RA | 1,149,849 | C→A | 6.3% | T94T (ACC→ACA) | yceG → | septation protein, ampicillin sensitivity |
| RA | 1,161,440 | C→A | 7.5% | intergenic (+299/‑101) | ycfP → / → ndh | putative UPF0227 family esterase/respiratory NADH dehydrogenase 2/cupric reductase |
| RA | 1,165,168 | C→A | 11.4% | R221R (CGG→CGT) | ldtC ← | L,D‑transpeptidase linking Lpp to murein |
| RA | 1,166,355 | C→A | 20.1% | T1022T (ACG→ACT) | mfd ← | transcription‑repair coupling factor |
| RA | 1,182,767 | G→A | 8.2% | R310R (CGC→CGT) | roxA ← | 50S ribosomal protein L16 arginine hydroxylase; 2‑oxoglutarate oxygenase |
| RA | 1,187,052 | G→T | 9.1% | H131N (CAC→AAC) | purB ← | adenylosuccinate lyase |
| RA | 1,201,592 | G→T | 6.4% | pseudogene (406/412 nt) | beeE → | pseudogene, portal protein family, e14 prophage;Phage or Prophage Related |
| RA | 1,214,003 | G→A | 6.9% | G407D (GGC→GAC) | ycgG → | putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase |
| RA | 1,244,752 | C→A | 14.3% | A154A (GCG→GCT) | dhaL ← | dihydroxyacetone kinase, C‑terminal domain |
| RA | 1,261,188 | G→T | 8.7% | D241Y (GAT→TAT) | prfA → | peptide chain release factor RF‑1 |
| RA | 1,269,438 | G→T | 6.0% | G67C (GGC→TGC) | ychO → | putative invasin |
| RA | 1,277,694 | G→T | 7.6% | W792L (TGG→TTG) | narG → | nitrate reductase 1, alpha subunit |
| RA | 1,299,192 | G→A | 5.4% | G61D (GGT→GAT) | oppD → | oligopeptide transporter subunit |
| RA | 1,299,622 | G→T | 7.4% | Q204H (CAG→CAT) | oppD → | oligopeptide transporter subunit |
| RA | 1,307,375 | C→A | 7.0% | L182L (CTG→CTT) | yciC ← | UPF0259 family inner membrane protein |
| RA | 1,324,432 | G→T | 6.1% | G282* (GGA→TGA) | sohB → | inner membrane protein, S49 peptidase family protein |
| RA | 1,326,555 | G→T | 8.7% | A417A (GCG→GCT) | topA → | DNA topoisomerase I, omega subunit |
| RA | 1,330,250 | G→T | 8.5% | G55C (GGT→TGT) | acnA → | aconitate hydratase 1 |
| RA | 1,335,780 | G→T | 9.6% | M322I (ATG→ATT) | yciM → | envelope integrity maintenance protein; EnvC‑interacting protein |
| RA | 1,348,900 | G→T | 5.1% | I276I (ATC→ATA) | sapB ← | antimicrobial peptide transport ABC transporter permease |
| RA | 1,354,800 | C→A | 8.6% | L122L (CTG→CTT) | puuA ← | glutamate‑‑putrescine ligase |
| RA | 1,369,097 | T→C | 7.0% | S251P (TCA→CCA) | ycjP → | inner membrane putative ABC superfamily sugar transporter permease |
| RA | 1,369,326 | C→A | 9.5% | P36Q (CCG→CAG) | ycjQ → | putative Zn‑dependent NAD(P)‑binding oxidoreductase |
| RA | 1,369,348 | C→A | 9.9% | V43V (GTC→GTA) | ycjQ → | putative Zn‑dependent NAD(P)‑binding oxidoreductase |
| RA | 1,373,959 | G→T | 6.2% | D607Y (GAC→TAC) | ycjT → | putative family 65 glycosyl hydrolase |
| RA | 1,410,806 | C→A | 8.1% | D280Y (GAC→TAC) | recE ← | Rac prophage; exonuclease VIII, 5' ‑> 3' specific dsDNA exonuclease |
| RA | 1,422,040 | A→G | 12.2% | 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 | 14.1% | pseudogene (924/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,168 | A→C | 5.2% | pseudogene (816/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,627 | A→G | 5.3% | 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 | 8.0% | pseudogene (336/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,422,798 | A→G | 5.8% | pseudogene (186/981 nt) | insH1 ← | IS5 transposase and trans‑activator;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,426,176 | A→G | 5.3% | K957K (AAA→AAG) | stfR → | Rac prophage; putative tail fiber protein |
| RA | 1,426,179 | T→C | 5.3% | P958P (CCT→CCC) | stfR → | Rac prophage; putative tail fiber protein |
| RA | 1,434,929 | G→T | 5.4% | A38D (GCC→GAC) | pfo ← | pyruvate‑flavodoxin oxidoreductase |
| RA | 1,460,458 | T→C | 12.0% | pseudogene (810/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,461,046 | C→T | 5.6% | pseudogene (1398/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,461,055 | A→G | 5.9% | pseudogene (1407/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| RA | 1,469,361 | G→T | 7.2% | intergenic (+23/‑40) | ydbC → / → ydbD | putative NAD(P)‑binding oxidoreductase/PF10971 family putative periplasmic methylglyoxal resistance protein |
| RA | 1,477,405 | C→A | 7.3% | R30S (CGT→AGT) | hrpA → | putative ATP‑dependent helicase |
| RA | 1,478,426 | G→A | 6.9% | R370H (CGT→CAT) | hrpA → | putative ATP‑dependent helicase |
| RA | 1,480,624 | G→T | 5.5% | G1103C (GGC→TGC) | hrpA → | putative ATP‑dependent helicase |
| RA | 1,502,480 | G→A | 7.7% | A481A (GCG→GCA) | ydcP → | putative peptidase |
| RA | 1,510,188 | G→T | 6.4% | L118L (CTG→CTT) | patD → | gamma‑aminobutyraldehyde dehydrogenase |
| RA | 1,510,257 | C→A | 6.6% | V141V (GTC→GTA) | patD → | gamma‑aminobutyraldehyde dehydrogenase |
| RA | 1,515,195 | C→A | 9.1% | intergenic (+11/+25) | mcbR → / ← yncD | colanic acid and biofilm gene transcriptional regulator, MqsR‑controlled/putative iron outer membrane transporter |
| RA | 1,529,104 | C→T | 7.4% | T275M (ACG→ATG) | nhoA → | N‑hydroxyarylamine O‑acetyltransferase |
| RA | 1,537,351 | A→G | 7.5% | F323L (TTT→CTT) | narU ← | nitrate/nitrite transporter |
| RA | 1,544,248 | C→A | 7.8% | P864Q (CCG→CAG) | fdnG → | formate dehydrogenase‑N, alpha subunit, nitrate‑inducible |
| RA | 1,567,063 | C→A | 7.3% | Q799H (CAG→CAT) | pqqL ← | putative periplasmic M16 family zinc metalloendopeptidase |
| RA | 1,593,534 | G→T | 8.2% | S311R (AGC→AGA) | lsrK ← | autoinducer‑2 (AI‑2) kinase |
| RA | 1,605,623 | C→A | 11.1% | A163A (GCG→GCT) | yneF ← | putative membrane‑bound diguanylate cyclase |
| RA | 1,609,146 | C→A | 5.9% | P29Q (CCG→CAG) | yneJ → | putative DNA‑binding transcriptional regulator |
| RA | 1,623,684 | A→G | 6.7% | intergenic (+9/+26) | ydfZ → / ← ydfI | selenoprotein, function unknown/putative NAD‑dependent D‑mannonate oxidoreductase |
| RA | 1,639,861 | C→A | 6.6% | R10R (CGG→CGT) | relE ← | Qin prophage; toxin of the RelE‑RelB toxin‑antitoxin system |
| RA | 1,653,563 | C→A | 9.3% | S413* (TCG→TAG) | ynfE → | putative selenate reductase, periplasmic |
| RA | 1,654,470 | G→T | 6.3% | E715D (GAG→GAT) | ynfE → | putative selenate reductase, periplasmic |
| RA | 1,660,129 | G→T | 7.7% | V186V (GTG→GTT) | clcB → | H(+)/Cl(‑) exchange transporter |
| RA | 1,663,175 | C→A | 14.2% | E225D (GAG→GAT) | ynfL ← | LysR family putative transcriptional regulator |
| RA | 1,668,970 | A→C | 7.6% | G267G (GGA→GGC) | tqsA → | pheromone AI‑2 transporter |
| RA | 1,680,075 | C→T | 6.2% | P257P (CCG→CCA) | fumC ← | fumarate hydratase (fumarase C),aerobic Class II |
| RA | 1,688,636 | C→A | 6.8% | G565C (GGT→TGT) | uidA ← | beta‑D‑glucuronidase |
| RA | 1,702,975 | G→A | 5.9% | A600A (GCG→GCA) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,712,312 | C→A | 6.4% | intergenic (‑48/+11) | pdxH ← / ← mliC | pyridoxine 5'‑phosphate oxidase/inhibitor of c‑type lysozyme, membrane‑bound; putative lipoprotein |
| RA | 1,721,018 | G→T | 7.7% | G35C (GGT→TGT) | nemA → | chromate reductase, quinone reductase, FMN‑linked; N‑Ethylmaleimide reductase; old yellow enzyme |
| RA | 1,738,293 | G→T | 6.9% | G194C (GGC→TGC) | mdtK → | multidrug efflux system transporter |
| RA | 1,739,658 | G→A | 5.9% | H243Y (CAT→TAT) | ydhQ ← | autotransporter adhesin‑related protein |
| RA | 1,745,816 | C→A | 5.3% | G56W (GGG→TGG) | ydhW ← | FNR, Nar, NarP‑regulated protein; putative subunit of YdhYVWXUT oxidoreductase complex |
| RA | 1,758,455 | C→A | 7.7% | P63P (CCG→CCT) | sufA ← | Fe‑S cluster assembly protein |
| RA | 1,762,599 | G→T | 10.9% | P115H (CCT→CAT) | ydiJ ← | putative FAD‑linked oxidoreductase |
| RA | 1,766,789 | C→A | 7.7% | F7L (TTC→TTA) | ydiN → | MFS transporter superfamily protein |
| RA | 1,803,884 | C→T | 5.6% | A83V (GCC→GTC) | yniC → | 2‑deoxyglucose‑6‑P phosphatase |
| RA | 1,806,192 | C→A | 5.3% | A334A (GCC→GCA) | ydjN → | putative transporter |
| RA | 1,822,360 | C→A | 17.0% | A53S (GCC→TCC) | astB ← | succinylarginine dihydrolase |
| RA | 1,823,523 | G→T | 6.1% | P157T (CCG→ACG) | astD ← | succinylglutamic semialdehyde dehydrogenase |
| RA | 1,823,904 | G→T | 8.7% | Q30K (CAA→AAA) | astD ← | succinylglutamic semialdehyde dehydrogenase |
| RA | 1,842,774 | C→A | 12.3% | G54W (GGG→TGG) | ydjA ← | putative oxidoreductase |
| RA | 1,855,573 | C→A | 8.5% | R6L (CGG→CTG) | ydjL ← | putative Zn‑dependent NAD(P)‑binding oxidoreductase |
| RA | 1,881,465 | C→A | 6.4% | G262C (GGT→TGT) | rnd ← | ribonuclease D |
| RA | 1,926,644 | C→A | 9.5% | G124C (GGT→TGT) | eda ← | multifunctional 2‑keto‑3‑deoxygluconate 6‑phosphate aldolase and 2‑keto‑4‑hydroxyglutarate aldolase and oxaloacetate decarboxylase |
| RA | 1,926,807 | C→A | 6.8% | V69V (GTG→GTT) | eda ← | multifunctional 2‑keto‑3‑deoxygluconate 6‑phosphate aldolase and 2‑keto‑4‑hydroxyglutarate aldolase and oxaloacetate decarboxylase |
| RA | 1,928,510 | C→A | 5.7% | G118W (GGG→TGG) | edd ← | 6‑phosphogluconate dehydratase |
| RA | 1,928,878 | G→T | 7.0% | intergenic (‑17/+218) | edd ← / ← zwf | 6‑phosphogluconate dehydratase/glucose‑6‑phosphate 1‑dehydrogenase |
| RA | 1,931,677 | C→T | 10.4% | R257* (CGA→TGA) | yebK → | putative DNA‑binding transcriptional regulator |
| RA | 1,960,152 | C→A | 6.0% | V99V (GTG→GTT) | flhB ← | flagellin export apparatus, substrate specificity protein |
| RA | 1,961,356 | G→T | 5.6% | A113A (GCC→GCA) | cheY ← | chemotaxis regulator transmitting signal to flagellar motor component |
| RA | 1,965,985 | G→T | 8.3% | R322S (CGC→AGC) | tar ← | methyl‑accepting chemotaxis protein II |
| RA | 1,966,679 | G→T | 8.3% | L90L (CTC→CTA) | tar ← | methyl‑accepting chemotaxis protein II |
| RA | 1,967,560 | C→A | 9.5% | E13* (GAG→TAG) | cheW ← | purine‑binding chemotaxis protein |
| RA | 1,974,819 | C→A | 9.0% | R92L (CGG→CTG) | otsA ← | trehalose‑6‑phosphate synthase |
| RA | 1,980,633 | C→A | 5.3% | P76P (CCC→CCA) | ftnB → | ferritin B, putative ferrous iron reservoir |
| RA | 1,992,317 | C→A | 6.0% | L215L (CTG→CTT) | dcyD ← | D‑cysteine desulfhydrase, PLP‑dependent |
| RA | 2,002,998 | G→T | 6.2% | V13V (GTG→GTT) | yedF → | putative TusA family sulfurtransferase |
| RA | 2,018,276 | T→C | 6.0% | K10R (AAA→AGA) | dsrB ← | uncharacterized protein |
| RA | 2,018,279 | A→T | 5.8% | V9D (GTC→GAC) | dsrB ← | uncharacterized protein |
| RA | 2,018,282 | G→C | 5.9% | T8R (ACA→AGA) | dsrB ← | uncharacterized protein |
| RA | 2,108,391 | C→A | 7.2% | S329S (TCG→TCT) | wcaM ← | colanic acid biosynthesis protein |
| RA | 2,113,263 | G→T | 5.8% | P126H (CCC→CAC) | wzxC ← | putative colanic acid exporter |
| RA | 2,116,924 | G→T | 7.0% | R360S (CGC→AGC) | cpsB ← | mannose‑1‑phosphate guanyltransferase |
| RA | 2,137,201 | C→A | 5.4% | P152H (CCT→CAT) | yegE → | putative diguanylate cyclase |
| RA | 2,189,082 | G→T | 5.4% | S435I (AGC→ATC) | metG → | methionyl‑tRNA synthetase |
| RA | 2,193,481 | C→A | 6.6% | pseudogene (681/948 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 | 2,202,492 | G→T | 5.7% | T349T (ACG→ACT) | yehP → | VMA domain putative YehL ATPase stimulator |
| RA | 2,210,387 | G→T | 6.5% | P167Q (CCG→CAG) | yehX ← | putative ABC superfamily transporter ATP‑binding subunit |
| RA | 2,225,035 | G→A | 7.6% | A180T (GCA→ACA) | yohK → | LrgB family inner membrane protein |
| RA | 2,254,067 | C→A | 5.9% | G275C (GGT→TGT) | fruA ← | fused fructose‑specific PTS enzymes: IIBcomponent/IIC components |
| RA | 2,261,952 | A→G | 8.1% | K215K (AAA→AAG) | yeiR → | Zn‑stimulated GTPase involved in zinc homeostasis; mutants are cadmium and EDTA sensitive; Zn(2+) binding protein |
| RA | 2,268,702 | G→T | 10.2% | D349Y (GAT→TAT) | yejB → | microcin C transporter YejABEF, permease subunit; ABC family |
| RA | 2,298,096 | T→A | 6.0% | intergenic (+224/+491) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,298,097 | A→T | 7.2% | intergenic (+225/+490) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,298,098 | C→T | 7.2% | intergenic (+226/+489) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,298,100 | C→A | 7.2% | intergenic (+228/+487) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,298,101 | C→A | 7.2% | intergenic (+229/+486) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,298,102 | G→A | 7.4% | intergenic (+230/+485) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,298,103 | C→T | 7.2% | intergenic (+231/+484) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,298,104 | T→A | 7.2% | intergenic (+232/+483) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,298,107 | Δ1 bp | 7.5% | intergenic (+235/+480) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,298,277 | T→C | 8.0% | intergenic (+405/+310) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,309,135 | C→A | 8.0% | P723P (CCC→CCA) | rcsD → | phosphotransfer intermediate protein in two‑component regulatory system with RcsBC |
| RA | 2,315,187 | T→C | 5.2% | F556L (TTT→CTT) | atoS → | sensory histidine kinase in two‑component regulatory system with AtoC |
| RA | 2,316,995 | G→T | 6.2% | G24C (GGC→TGC) | atoD → | acetyl‑CoA:acetoacetyl‑CoA transferase, alpha subunit |
| RA | 2,317,013 | G→T | 5.6% | G30C (GGC→TGC) | atoD → | acetyl‑CoA:acetoacetyl‑CoA transferase, alpha subunit |
| RA | 2,342,764 | C→A | 9.8% | R63L (CGA→CTA) | inaA ← | acid‑inducible Kdo/WaaP family putative kinase |
| RA | 2,368,466 | C→A | 6.0% | W6L (TGG→TTG) | menE ← | O‑succinylbenzoate‑CoA ligase |
| RA | 2,398,883 | C→A | 12.1% | intergenic (‑332/+299) | nuoA ← / ← lrhA | NADH:ubiquinone oxidoreductase, membrane subunit A/transcriptional repressor of flagellar, motility and chemotaxis genes |
| RA | 2,407,487 | G→A | 5.6% | G180D (GGC→GAC) | ackA → | acetate kinase A and propionate kinase 2 |
| RA | 2,415,664 | C→A | 7.2% | L160M (CTG→ATG) | yfcH → | putative NAD‑dependent nucleotide‑sugar epimerase |
| RA | 2,417,718 | G→C | 6.9% | R91G (CGC→GGC) | hisP ← | histidine/lysine/arginine/ornithine transporter subunit |
| RA | 2,474,001 | G→T | 5.3% | G441C (GGC→TGC) | dsdA → | D‑serine dehydratase |
| RA | 2,480,217 | C→A | 8.6% | P789T (CCT→ACT) | evgS → | hybrid sensory histidine kinase in two‑component regulatory system with EvgA |
| RA | 2,499,704 | G→T | 7.0% | I136I (ATC→ATA) | ypdF ← | Xaa‑Pro aminopeptidase |
| RA | 2,501,750 | C→T | 10.6% | intergenic (‑29/+190) | fryB ← / ← glk | putative enzyme IIB component of PTS/glucokinase |
| RA | 2,506,782 | G→A | 5.6% | A88T (GCA→ACA) | nupC → | nucleoside (except guanosine) transporter |
| RA | 2,511,452 | G→T | 13.6% | intergenic (‑141/+68) | yfeA ← / ← alaX | putative diguanylate cyclase/tRNA‑Ala |
| RA | 2,514,609 | Δ1 bp | 8.5% | intergenic (+2/‑3) | valY → / → lysV | tRNA‑Val/tRNA‑Lys |
| RA | 2,514,875 | G→A | 6.8% | intergenic (+188/+77) | lysV → / ← xapR | tRNA‑Lys/transcriptional activator of xapAB |
| RA | 2,557,059 | G→A | 10.7% | V37I (GTT→ATT) | yffQ → | CPZ‑55 prophage; uncharacterized protein |
| RA | 2,567,817 | C→A | 8.3% | L182L (CTG→CTT) | eutQ ← | RmlC‑like cupin domain protein |
| RA | 2,569,571 | C→A | 5.5% | P722P (CCG→CCT) | maeB ← | malic enzyme: putative oxidoreductase/putative phosphotransacetylase |
| RA | 2,616,125 | C→A | 7.3% | P178Q (CCA→CAA) | purN → | phosphoribosylglycinamide formyltransferase 1 |
| RA | 2,640,040 | G→A | 5.6% | A215A (GCC→GCT) | pbpC ← | penicillin‑insensitive murein repair transglycosylase; inactive transpeptidase domain |
| RA | 2,643,327 | T→C | 5.2% | K774E (AAG→GAG) | yfhM ← | bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein |
| RA | 2,643,605 | G→T | 9.4% | S681* (TCA→TAA) | yfhM ← | bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein |
| RA | 2,656,451 | C→A | 5.5% | G78C (GGC→TGC) | trmJ ← | tRNA mC32,mU32 2'‑O‑methyltransferase, SAM‑dependent |
| RA | 2,667,952 | G→T | 6.4% | L32L (CTC→CTA) | yphB ← | mutarotase superfamily protein, YphB family |
| RA | 2,675,599 | G→A | 7.8% | A169V (GCG→GTG) | yphG ← | DUF4380 domain‑containing TPR repeat protein |
| RA | 2,677,370 | G→T | 7.7% | L383L (CTG→CTT) | yphH → | putative DNA‑binding transcriptional regulator |
| RA | 2,716,875 | G→A | 6.1% | E264K (GAG→AAG) | pssA → | phosphatidylserine synthase (CDP‑diacylglycerol‑serine O‑phosphatidyltransferase) |
| RA | 2,719,426 | T→C | 100% | intergenic (‑321/+2) | kgtP ← / ← rrfG | alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon |
| RA | 2,732,191 | G→T | 6.1% | G363V (GGG→GTG) | pheA → | chorismate mutase and prephenate dehydratase, P‑protein |
| RA | 2,733,414 | C→A | 5.2% | L5F (TTG→TTT) | tyrA ← | fused chorismate mutase T/prephenate dehydrogenase |
| RA | 2,747,343 | C→A | 5.6% | intergenic (+38/+24) | bamE → / ← ratB | lipoprotein component of BamABCDE OM biogenesis complex/UPF0125 family protein |
| RA | 2,761,465 | G→T | 6.2% | E133* (GAG→TAG) | yfjP → | CP4‑57 prophage; 50S ribosome‑binding GTPase family protein |
| RA | 2,762,144 | C→A | 8.7% | R41S (CGC→AGC) | yfjQ → | CP4‑57 prophage; uncharacterized protein |
| RA | 2,763,926 | T→C | 6.6% | G41G (GGT→GGC) | ypjK → | CP4‑57 prophage; putative inner membrane protein |
| RA | 2,774,305 | A→C | 5.3% | V594G (GTT→GGT) | ypjA ← | adhesin‑like autotransporter |
| RA | 2,776,675 | T→G | 8.1% | intergenic (‑12/+322) | pinH ← / ← ypjC | pseudogene, invertase resolvase family/pseudogene |
| RA | 2,789,807 | C→T | 5.9% | Q113Q (CAG→CAA) | ygaU ← | uncharacterized protein |
| RA | 2,801,195 | G→T | 5.1% | P235P (CCG→CCT) | proX → | glycine betaine transporter subunit |
| RA | 2,820,575 | G→T | 6.5% | P275P (CCG→CCT) | srlE → | glucitol/sorbitol‑specific enzyme IIB component of PTS |
| RA | 2,856,353 | G→T | 7.3% | T220T (ACG→ACT) | ygbK → | FliA‑regulated DUF1537 family protein |
| RA | 2,896,453 | G→T | 6.7% | R400L (CGA→CTA) | ygcE → | putative kinase |
| RA | 2,909,684 | C→A | 8.9% | F423L (TTC→TTA) | barA → | hybrid sensory histidine kinase, in two‑component regulatory system with UvrY |
| RA | 2,911,080 | G→T | 7.0% | G889C (GGT→TGT) | barA → | hybrid sensory histidine kinase, in two‑component regulatory system with UvrY |
| RA | 2,914,473 | C→T | 5.6% | P329P (CCG→CCA) | gudP ← | putative D‑glucarate transporter |
| RA | 2,921,997 | C→A | 5.1% | P137Q (CCG→CAG) | sdaC → | putative serine transporter |
| RA | 2,927,367 | G→T | 9.0% | intergenic (‑320/‑227) | fucA ← / → fucP | L‑fuculose‑1‑phosphate aldolase/L‑fucose transporter |
| RA | 2,963,823 | C→A | 8.7% | L15L (CTC→CTA) | ygdQ → | UPF0053 family inner membrane protein |
| RA | 2,970,872 | G→A | 6.4% | A305A (GCG→GCA) | galR → | galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor |
| RA | 2,973,746 | G→T | 5.8% | T83T (ACC→ACA) | ygeA ← | Asp/Glu_racemase family protein |
| RA | 2,983,492 | G→T | 8.6% | V76V (GTC→GTA) | yqeK ← | uncharacterized protein |
| RA | 3,006,578 | C→A | 6.2% | E341* (GAA→TAA) | yqeB ← | XdhC‑CoxI family protein with NAD(P)‑binding Rossman fold |
| RA | 3,007,631 | G→T | 6.3% | intergenic (‑33/+15) | yqeB ← / ← yqeC | XdhC‑CoxI family protein with NAD(P)‑binding Rossman fold/putative selenium‑dependent hydroxylase accessory protein |
| RA | 3,008,082 | C→A | 10.7% | R112L (CGA→CTA) | yqeC ← | putative selenium‑dependent hydroxylase accessory protein |
| RA | 3,032,838 | C→A | 8.9% | E89* (GAA→TAA) | xerD ← | site‑specific tyrosine recombinase |
| RA | 3,047,431 | G→T | 5.6% | L257M (CTG→ATG) | pepP ← | proline aminopeptidase P II |
| RA | 3,064,718 | T→G | 5.0% | intergenic (‑115/+100) | fbaA ← / ← pgk | fructose‑bisphosphate aldolase, class II/phosphoglycerate kinase |
| RA | 3,088,605 | G→T | 5.7% | G50V (GGG→GTG) | yggS → | UPF0001 family protein, PLP‑binding |
| RA | 3,089,811 | G→T | 6.4% | D24Y (GAT→TAT) | yggU → | UPF0235 family protein |
| RA | 3,103,043 | G→T | 7.5% | G44G (GGG→GGT) | yqgA → | DUF554 family putative inner membrane protein |
| RA | 3,106,779 | C→A | 7.0% | G20* (GGA→TGA) | yghG ← | secretin (GspDbeta) OM localization lipoprotein pilotin |
| RA | 3,107,853 | C→A | 7.1% | intergenic (‑142/+56) | pppA ← / ← yghJ | bifunctional prepilin leader peptidase/ methylase/DUF4092 family putative lipoprotein peptidase |
| RA | 3,118,182 | C→A | 5.4% | D213Y (GAC→TAC) | glcF ← | glycolate oxidase 4Fe‑4S iron‑sulfur cluster subunit |
| RA | 3,118,957 | G→T | 7.1% | R309S (CGC→AGC) | glcE ← | glycolate oxidase FAD binding subunit |
| RA | 3,152,019 | C→A | 10.0% | L12M (CTG→ATG) | yqhH → | outer membrane lipoprotein, Lpp paralog |
| RA | 3,152,221 | G→T | 7.4% | C79F (TGC→TTC) | yqhH → | outer membrane lipoprotein, Lpp paralog |
| RA | 3,153,351 | G→T | 5.5% | G385G (GGC→GGA) | ygiQ ← | Radical SAM superfamily protein |
| RA | 3,164,392 | C→A | 6.0% | R184S (CGT→AGT) | qseC → | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB |
| RA | 3,170,082 | G→A | 6.3% | N37N (AAC→AAT) | cpdA ← | 3',5' cAMP phosphodiesterase |
| RA | 3,246,779 | C→A | 8.3% | S265S (TCG→TCT) | yhaJ ← | LysR family putative transcriptional regulator |
| RA | 3,247,161 | C→A | 5.2% | W138L (TGG→TTG) | yhaJ ← | LysR family putative transcriptional regulator |
| RA | 3,251,139 | C→A | 8.9% | P77P (CCG→CCT) | yhaO ← | putative transporter |
| RA | 3,254,650 | C→A | 6.5% | L376L (CTG→CTT) | tdcE ← | pyruvate formate‑lyase 4/2‑ketobutyrate formate‑lyase |
| RA | 3,263,315 | T→C | 6.8% | intergenic (+354/+260) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,264,939 | C→A | 8.9% | W64L (TGG→TTG) | garK ← | glycerate kinase I |
| RA | 3,266,827 | C→A | 8.3% | P30P (CCG→CCT) | garL ← | alpha‑dehydro‑beta‑deoxy‑D‑glucarate aldolase |
| RA | 3,275,271 | G→T | 11.6% | intergenic (+287/‑64) | agaA → / → agaS | pseudogene, N‑acetylgalactosamine‑6‑phosphate deacetylase fragment; putative N‑acetylgalactosamine‑6‑phosphate deacetylase/tagatose‑6‑phosphate ketose/aldose isomerase |
| RA | 3,292,078 | C→A | 6.6% | G43V (GGG→GTG) | yraR ← | putative nucleoside‑diphosphate‑sugar epimerase |
| RA | 3,294,984 | G→T | 6.4% | L47F (TTG→TTT) | yhbU → | U32 peptidase family protein |
| RA | 3,299,374 | G→T | 7.8% | R616S (CGT→AGT) | deaD ← | ATP‑dependent RNA helicase |
| RA | 3,326,754 | G→T | 5.8% | T19T (ACC→ACA) | rplU ← | 50S ribosomal subunit protein L21 |
| RA | 3,329,949 | G→T | 9.8% | P72T (CCT→ACT) | ibaG ← | acid stress protein; putative transcriptional regulator, BolA family |
| RA | 3,330,996 | C→A | 5.8% | A85A (GCG→GCT) | mlaC ← | ABC transporter maintaining OM lipid asymmetry, periplasmic binding protein |
| RA | 3,350,423 | G→T | 11.1% | Q780H (CAG→CAT) | gltB → | glutamate synthase, large subunit |
| RA | 3,366,506 | C→A | 7.4% | G144W (GGG→TGG) | nanA ← | N‑acetylneuraminate lyase |
| RA | 3,375,515 | C→A | 11.0% | intergenic (+46/‑44) | degQ → / → degS | serine endoprotease, periplasmic/serine endoprotease, periplasmic |
| RA | 3,377,325 | C→A | 6.8% | L101L (CTG→CTT) | mdh ← | malate dehydrogenase, NAD(P)‑binding |
| RA | 3,382,563 | C→A | 5.8% | W45L (TGG→TTG) | aaeX ← | DUF1656 family putative inner membrane efflux pump associated protein |
| RA | 3,398,496 | C→A | 5.9% | intergenic (+106/‑299) | yrdE → / → accB | pseudogene, yedZ paralog/acetyl CoA carboxylase, BCCP subunit |
| RA | 3,404,812 | C→A | 5.7% | P61P (CCC→CCA) | fis → | global DNA‑binding transcriptional dual regulator |
| RA | 3,409,598 | G→T | 5.6% | G403W (GGG→TGG) | acrF → | multidrug efflux system protein |
| RA | 3,416,899 | A→G | 5.9% | noncoding (3/120 nt) | rrfF ← | 5S ribosomal RNA of rrnD operon |
| RA | 3,435,656 | C→A | 10.9% | E59* (GAA→TAA) | rpsM ← | 30S ribosomal subunit protein S13 |
| RA | 3,440,257 | C→A | 5.5% | intergenic (‑14/+1) | rpsN ← / ← rplE | 30S ribosomal subunit protein S14/50S ribosomal subunit protein L5 |
| RA | 3,454,822 | C→A | 5.1% | intergenic (+3/‑5) | gspG → / → gspH | pseudopilin, cryptic, general secretion pathway/putative general secretory pathway component, cryptic |
| RA | 3,461,873 | G→T | 5.4% | P447Q (CCG→CAG) | chiA ← | periplasmic endochitinase |
| RA | 3,488,915 | G→T | 5.2% | G516C (GGC→TGC) | nirB → | nitrite reductase, large subunit, NAD(P)H‑binding |
| RA | 3,500,654 | C→A | 6.0% | T14T (ACG→ACT) | yhfT ← | inner membrane protein |
| RA | 3,501,567 | G→T | 5.7% | T128N (ACC→AAC) | php ← | phosphotriesterase homology protein |
| RA | 3,512,679 | C→A | 8.9% | intergenic (‑256/+145) | aroK ← / ← hofQ | shikimate kinase I/DNA catabolic putative fimbrial transporter |
| RA | 3,514,870 | G→T | 6.3% | A154A (GCC→GCA) | hofN ← | DNA catabolic putative fimbrial assembly protein |
| RA | 3,532,952 | G→T | 6.6% | E737* (GAA→TAA) | yhgF → | putative transcriptional accessory protein |
| RA | 3,547,438 | G→T | 5.5% | C332F (TGC→TTC) | malT → | mal regulon transcriptional activator |
| RA | 3,549,659 | C→A | 6.3% | E184* (GAG→TAG) | rtcA ← | RNA 3'‑terminal phosphate cyclase |
| RA | 3,564,744 | G→T | 5.0% | R707S (CGT→AGT) | glgB ← | 1,4‑alpha‑glucan branching enzyme |
| RA | 3,617,481 | G→T | 14.3% | pseudogene (235/351 nt) | yrhC → | pseudogene fragment |
| RA | 3,659,586 | G→T | 7.5% | P452Q (CCG→CAG) | gadA ← | glutamate decarboxylase A, PLP‑dependent |
| RA | 3,661,396 | C→A | 6.1% | G385C (GGT→TGT) | yhjA ← | putative cytochrome C peroxidase |
| RA | 3,669,589 | A→G | 9.1% | intergenic (+121/+61) | yhjE → / ← yhjG | MFS superfamily sugar transport 1 family protein/putative inner membrane‑anchored periplasmic AsmA family protein |
| RA | 3,669,592 | C→T | 8.0% | intergenic (+124/+58) | yhjE → / ← yhjG | MFS superfamily sugar transport 1 family protein/putative inner membrane‑anchored periplasmic AsmA family protein |
| RA | 3,669,597 | C→T | 7.5% | intergenic (+129/+53) | yhjE → / ← yhjG | MFS superfamily sugar transport 1 family protein/putative inner membrane‑anchored periplasmic AsmA family protein |
| RA | 3,669,600 | A→G | 5.1% | intergenic (+132/+50) | yhjE → / ← yhjG | MFS superfamily sugar transport 1 family protein/putative inner membrane‑anchored periplasmic AsmA family protein |
| RA | 3,672,940 | G→T | 6.3% | L54L (CTG→CTT) | kdgK → | 2‑dehydro‑3‑deoxygluconokinase |
| RA | 3,691,055 | C→A | 5.3% | P413H (CCT→CAT) | bcsE → | cellulose production protein |
| RA | 3,705,323 | G→T | 8.8% | I15I (ATC→ATA) | yhjX ← | pyruvate‑inducible inner membrane protein, putative transporter |
| RA | 3,742,844 | C→A | 10.0% | R85S (CGT→AGT) | sgbU → | putative L‑xylulose 5‑phosphate 3‑epimerase |
| RA | 3,752,670 | G→T | 5.7% | T184T (ACC→ACA) | selB ← | selenocysteinyl‑tRNA‑specific translation factor |
| RA | 3,785,919 | C→A | 5.4% | intergenic (‑8/+267) | kbl ← / ← yibB | glycine C‑acetyltransferase/YibB family protein, function unknown |
| RA | 3,785,965 | C→A | 7.7% | intergenic (‑54/+221) | kbl ← / ← yibB | glycine C‑acetyltransferase/YibB family protein, function unknown |
| RA | 3,803,975 | C→A | 8.4% | G180W (GGG→TGG) | mutM ← | formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase |
| RA | 3,818,141 | G→T | 6.1% | Q89H (CAG→CAT) | trmH → | tRNA mG18‑2'‑O‑methyltransferase, SAM‑dependent |
| RA | 3,821,819 | C→T | 8.4% | P69P (CCG→CCA) | gltS ← | glutamate transporter |
| RA | 3,844,126 | T→A | 6.5% | intergenic (‑40/+36) | uhpA ← / ← ilvN | response regulator in two‑component regulatory system wtih UhpB/acetolactate synthase 1 small subunit |
| RA | 3,845,393 | G→T | 5.6% | P251Q (CCA→CAA) | ilvB ← | acetolactate synthase 2 large subunit |
| RA | 3,857,229 | C→A | 5.3% | intergenic (‑266/‑30) | glvC ← / → yidP | pseudogene, arbutin specific enzyme IIC component of PTS;enzyme; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system, arbutin‑like IIB component; PTS system, arbutin‑like IIC component/UTRA domain‑containing GntR family putative transcriptional regulator |
| RA | 3,877,923 | A→G | 100% | Q24R (CAG→CGG) | rnpA → | protein C5 component of RNase P |
| RA | 3,880,560 | C→A | 8.3% | Q125K (CAG→AAG) | mnmE → | tRNA U34 5‑methylaminomethyl‑2‑thiouridine modification GTPase |
| RA | 3,887,412 | G→T | 6.8% | E58* (GAA→TAA) | yieE → | phosphopantetheinyl transferase superfamily protein |
| RA | 3,918,498 | C→A | 5.2% | G166C (GGT→TGT) | mnmG ← | 5‑methylaminomethyl‑2‑thiouridine modification at tRNA U34 |
| RA | 3,923,726 | G→T | 6.4% | P243Q (CCG→CAG) | ravA ← | hexameric AAA+ MoxR family ATPase, putative molecular chaperone |
| RA | 3,979,767 | C→A | 7.3% | intergenic (‑400/‑25) | aslA ← / → glmZ | putative Ser‑type periplasmic non‑aryl sulfatase/sRNA antisense activator of glmS mRNA, Hfq‑dependent |
| RA | 3,988,103 | C→A | 8.1% | intergenic (+18/‑19) | yifL → / → dapF | putative lipoprotein/diaminopimelate epimerase |
| RA | 4,000,025 | G→A | 6.9% | A268T (GCC→ACC) | recQ → | ATP‑dependent DNA helicase |
| RA | 4,008,201 | C→A | 8.5% | Q597K (CAG→AAG) | metE → | 5‑methyltetrahydropteroyltriglutamate‑ homocysteine S‑methyltransferase |
| RA | 4,019,993 | Δ1 bp | 100% | coding (107/702 nt) | fre → | NAD(P)H‑flavin reductase |
| RA | 4,049,183 | C→A | 10.2% | E173* (GAA→TAA) | glnL ← | sensory histidine kinase in two‑component regulatory system with GlnG |
| RA | 4,063,086 | G→T | 9.7% | H226N (CAC→AAC) | yihR ← | mutarotase superfamily protein, YihR family |
| RA | 4,064,210 | C→A | 6.6% | D303Y (GAC→TAC) | yihS ← | aldose‑ketose isomerase; D‑mannose isomerase |
| RA | 4,067,579 | G→T | 7.8% | G161W (GGG→TGG) | yihV → | putative sugar kinase |
| RA | 4,072,790 | C→A | 8.8% | P45Q (CCG→CAG) | yiiE → | CopG family putative transcriptional regulator |
| RA | 4,075,612 | C→A | 5.2% | G170W (GGG→TGG) | fdoH ← | formate dehydrogenase‑O, Fe‑S subunit |
| RA | 4,094,391 | G→T | 11.5% | T171T (ACC→ACA) | cpxA ← | sensory histidine kinase in two‑component regulatory system with CpxR |
| RA | 4,107,842 | G→T | 8.6% | T59T (ACC→ACA) | glpF ← | glycerol facilitator |
| RA | 4,129,376 | C→A | 5.2% | P87P (CCG→CCT) | fsaB ← | fructose‑6‑phosphate aldolase 2 |
| RA | 4,148,050 | C→A | 6.5% | L425M (CTG→ATG) | argH → | argininosuccinate lyase |
| RA | 4,165,450 | A→C | 5.5% | noncoding (51/85 nt) | tyrU → | tRNA‑Tyr |
| RA | 4,172,432 | G→T | 6.5% | L420L (CTG→CTT) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,172,857 | A→T | 60.0% | E562V (GAA→GTA) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,173,032 | C→A | 6.2% | N620K (AAC→AAA) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,176,469 | A→G | 10.2% | K398E (AAG→GAG) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,177,586 | T→G | 8.3% | L770R (CTC→CGC) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,178,500 | C→T | 7.5% | R1075C (CGT→TGT) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,286,083 | T→C | 20.9% | intergenic (+361/+170) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,305,314 | G→T | 5.8% | T14T (ACC→ACA) | phnO ← | aminoalkylphosphonate N‑acetyltransferase |
| RA | 4,305,615 | G→T | 9.3% | V95V (GTC→GTA) | phnN ← | ribose 1,5‑bisphosphokinase |
| RA | 4,306,244 | G→T | 6.0% | G264G (GGC→GGA) | phnM ← | ribophosphonate triphosphate hydrolase |
| RA | 4,310,740 | G→T | 6.2% | L109I (CTT→ATT) | phnH ← | ribophosphonate triphosphate synthase subunit |
| RA | 4,312,829 | C→T | 5.7% | pseudogene (219/426 nt) | phnE ← | defective phosphonate ABC transporter permease;transport; Transport of small molecules: Anions; membrane channel protein component of Pn transporter; membrane component of ABC superfamily |
| RA | 4,353,379 | G→T | 13.3% | P494Q (CCG→CAG) | dsbD ← | fused thiol:disulfide interchange protein: activator of DsbC/conserved protein |
| RA | 4,360,595 | G→A | 5.9% | A31T (GCA→ACA) | groS → | Cpn10 chaperonin GroES, small subunit of GroESL |
| RA | 4,369,709 | C→T | 5.4% | G209D (GGC→GAC) | frdB ← | fumarate reductase (anaerobic), Fe‑S subunit |
| RA | 4,379,534 | C→T | 6.5% | G215D (GGC→GAC) | psd ← | phosphatidylserine decarboxylase |
| RA | 4,394,008 | C→A | 6.3% | R298S (CGT→AGT) | hflC → | modulator for HflB protease specific for phage lambda cII repressor |
| RA | 4,401,481 | G→A | 6.2% | A121A (GCG→GCA) | yjfK → | DUF2491 family protein |
| RA | 4,412,376 | G→T | 9.5% | W125L (TGG→TTG) | ulaD → | 3‑keto‑L‑gulonate 6‑phosphate decarboxylase |
| RA | 4,417,781 | C→A | 6.1% | pseudogene (271/402 nt) | ytfA → | pseudogene, related to transcriptional regulators |
| RA | 4,425,130 | G→T | 5.2% | P418Q (CCG→CAG) | cpdB ← | 2':3'‑cyclic‑nucleotide 2'‑phosphodiesterase |
| RA | 4,440,247 | G→T | 7.2% | G157C (GGC→TGC) | ytfQ → | galactofuranose binding proteint: periplasmic‑binding component of ABC superfamily |
| RA | 4,447,390 | C→A | 8.4% | R98L (CGT→CTT) | yjgA ← | ribosome‑associated UPF0307 family protein |
| RA | 4,501,050 | G→T | 6.8% | A75A (GCC→GCA) | fecE ← | iron‑dicitrate transporter subunit |
| RA | 4,501,512 | C→A | 5.5% | V240V (GTG→GTT) | fecD ← | iron‑dicitrate transporter subunit |
| RA | 4,501,527 | C→A | 5.6% | M235I (ATG→ATT) | fecD ← | iron‑dicitrate transporter subunit |
| RA | 4,505,463 | G→T | 5.4% | P344P (CCC→CCA) | fecA ← | ferric citrate outer membrane transporter |
| RA | 4,507,300 | G→T | 7.1% | R79S (CGC→AGC) | fecR ← | FecI pro‑sigma factor; transmembrane signal transducer for ferric citrate transport; periplasmic FecA:ferric citrate sensor and cytoplasmic FecI ECF sigma factor activator |
| RA | 4,508,633 | A→G | 7.2% | pseudogene (96/504 nt) | insB1 → | IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 4,519,580 | C→T | 5.1% | A161T (GCA→ACA) | sgcC ← | putative PTS system EIIC permease component |
| RA | 4,522,568 | G→T | 7.5% | Q145K (CAG→AAG) | yjhP ← | putative methyltransferase |
| RA | 4,557,503 | C→A | 6.8% | P278P (CCG→CCT) | mdtM ← | multidrug efflux system protein |
| RA | 4,565,199 | C→A | 7.8% | pseudogene (1464/2937 nt) | yjiV → | pseudogene; conserved hypothetical protein |
| RA | 4,588,521 | C→A | 7.6% | L246L (CTG→CTT) | opgB ← | phosphoglycerol transferases I and II |
| RA | 4,604,195 | A→G | 5.7% | intergenic (+118/+302) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| RA | 4,609,231 | C→A | 5.6% | Q396K (CAG→AAG) | deoA → | thymidine phosphorylase |
| RA | 4,610,011 | C→A | 5.9% | R198S (CGT→AGT) | deoB → | phosphopentomutase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 463832 | 464289 | 458 | 17 [12] | [15] 18 | [ybaO] | [ybaO] |
| * | * | ÷ | CP009273 | 578893 | 579140 | 248 | 18 [16] | [12] 18 | [appY] | [appY] |
| * | * | ÷ | CP009273 | 2027284 | 2027428 | 145 | 17 [16] | [15] 17 | rseX/yedS | sRNA antisense regulator of ompA and ompC translation, Hfq‑dependent/pseudogene, outer membrane protein homology; putative outer membrane protein |
| * | * | ÷ | CP009273 | 3448752 | 3448865 | 114 | 23 [15] | [13] 29 | [gspA] | [gspA] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 335746 = | 124 (1.580) | 11 (0.140) | 6/248 | NT | 8.2% | noncoding (279/358 nt) | REP23 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP23 (repetitive extragenic palindromic) element; contains 8 REP sequences |
| ? | CP009273 | 372778 = | NA (NA) | intergenic (+11/+213) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | CP009273 | 360104 = | 55 (0.700) | 85 (1.090) | 32/250 | NT | 60.7% | 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 | 370386 = | NA (NA) | 15 (0.290) | 6/164 | NT | 14.5% | noncoding (1/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | 372978 = | 98 (1.720) | intergenic (+211/+13) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | CP009273 | 370479 = | 68 (0.870) | 6 (0.120) | 3/166 | NT | 8.1% | noncoding (94/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | CP009273 | 372986 = | 92 (1.780) | intergenic (+219/+5) | yaiL/frmB | DUF2058 family protein/S‑formylglutathione hydrolase | |||||
| * | ? | CP009273 | 1203246 = | 33 (0.420) | 28 (0.410) | 15/218 | NT | 53.0% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 21 (0.310) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 29 (0.370) | 10 (0.150) | 7/218 | NT | 30.2% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 21 (0.310) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 1972769 = | 1 (0.010) | 55 (0.710) | 30/248 | NT | 98.2% | 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 | 4 (0.050) | 83 (1.060) | 35/250 | NT | 95.4% | 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 | |||||