breseq  version 0.33.1  revision 8505477f25b3 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence	position	mutation	freq	annotation	gene	description
RA	6,671	A→G	6.4%	L430P (CTC→CCC)	yaaJ ←	putative transporter
RA	9,907	A→C	13.2%	intergenic (+14/+21)	mog → / ← satP	molybdochelatase incorporating molybdenum into molybdopterin/succinate‑acetate transporter
RA	9,908	G→T	12.0%	intergenic (+15/+20)	mog → / ← satP	molybdochelatase incorporating molybdenum into molybdopterin/succinate‑acetate transporter
RA	14,116	A→G	7.0%	intergenic (+37/‑52)	dnaK → / → dnaJ	chaperone Hsp70, with co‑chaperone DnaJ/chaperone Hsp40, DnaK co‑chaperone
RA	14,119	G→A	8.1%	intergenic (+40/‑49)	dnaK → / → dnaJ	chaperone Hsp70, with co‑chaperone DnaJ/chaperone Hsp40, DnaK co‑chaperone
RA	14,124	T→A	7.5%	intergenic (+45/‑44)	dnaK → / → dnaJ	chaperone Hsp70, with co‑chaperone DnaJ/chaperone Hsp40, DnaK co‑chaperone
RA	15,318	G→A	6.6%	intergenic (+20/‑127)	dnaJ → / → insL1	chaperone Hsp40, DnaK co‑chaperone/IS186 transposase
RA	15,319	T→C	6.6%	intergenic (+21/‑126)	dnaJ → / → insL1	chaperone Hsp40, DnaK co‑chaperone/IS186 transposase
RA	83,587	A→C	23.8%	intergenic (‑58/+35)	leuA ← / ← leuL	2‑isopropylmalate synthase/leu operon leader peptide
RA	83,590	G→T	23.8%	intergenic (‑61/+32)	leuA ← / ← leuL	2‑isopropylmalate synthase/leu operon leader peptide
RA	106,831	T→A	8.2%	I92N (ATT→AAT)	lpxC →	UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase
RA	111,013	G→A	15.4%	intergenic (+29/‑31)	secA → / → mutT	preprotein translocase subunit, ATPase/dGTP‑preferring nucleoside triphosphate pyrophosphohydrolase
RA	111,016	T→C	16.0%	intergenic (+32/‑28)	secA → / → mutT	preprotein translocase subunit, ATPase/dGTP‑preferring nucleoside triphosphate pyrophosphohydrolase
RA	164,557	G→C	8.6%	intergenic (+23/‑173)	hrpB → / → mrcB	putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase
RA	164,558	T→A	8.6%	intergenic (+24/‑172)	hrpB → / → mrcB	putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase
RA	164,620	C→T	6.2%	intergenic (+86/‑110)	hrpB → / → mrcB	putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase
RA	164,621	A→G	6.3%	intergenic (+87/‑109)	hrpB → / → mrcB	putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase
RA	176,977	A→G	10.3%	intergenic (+23/+24)	erpA → / ← yadS	iron‑sulfur cluster insertion protein/UPF0126 family inner membrane protein
RA	176,978	A→T	10.2%	intergenic (+24/+23)	erpA → / ← yadS	iron‑sulfur cluster insertion protein/UPF0126 family inner membrane protein
RA	176,979	C→T	9.6%	intergenic (+25/+22)	erpA → / ← yadS	iron‑sulfur cluster insertion protein/UPF0126 family inner membrane protein
RA	207,483	A→C	5.9%	V786V (GTA→GTC)	dnaE →	DNA polymerase III alpha subunit
RA	207,486	G→T	5.8%	M787I (ATG→ATT)	dnaE →	DNA polymerase III alpha subunit
RA	217,030	C→T	7.6%	intergenic (‑27/+27)	yaeF ← / ← proS	putative lipoprotein/prolyl‑tRNA synthetase
RA	217,037	A→T	6.2%	intergenic (‑34/+20)	yaeF ← / ← proS	putative lipoprotein/prolyl‑tRNA synthetase
RA	231,007	C→A	7.0%	intergenic (‑126/‑115)	yafC ← / → yafD	LysR family putative transcriptional regulator/endo/exonuclease/phosphatase family protein
RA	231,008	T→G	7.1%	intergenic (‑127/‑114)	yafC ← / → yafD	LysR family putative transcriptional regulator/endo/exonuclease/phosphatase family protein
RA	238,141	G→A	7.5%	intergenic (+21/+116)	yafT → / ← ykfM	lipoprotein/lethality reduction protein, putative inner membrane protein
RA	238,146	T→C	7.7%	intergenic (+26/+111)	yafT → / ← ykfM	lipoprotein/lethality reduction protein, putative inner membrane protein
RA	254,228	A→T	6.1%	intergenic (+26/+31)	prfH → / ← pepD	pseudogene, RF‑1 domain family; probable peptide chain release factor/aminoacyl‑histidine dipeptidase (peptidase D)
RA	254,233	A→T	6.1%	intergenic (+31/+26)	prfH → / ← pepD	pseudogene, RF‑1 domain family; probable peptide chain release factor/aminoacyl‑histidine dipeptidase (peptidase D)
RA	254,238	A→T	5.9%	intergenic (+36/+21)	prfH → / ← pepD	pseudogene, RF‑1 domain family; probable peptide chain release factor/aminoacyl‑histidine dipeptidase (peptidase D)
MC JC	257,908	Δ776 bp	100%		[crl]	[crl]
RA	260,466	C→T	5.5%	H27Y (CAT→TAT)	proB →	gamma‑glutamate kinase
RA	272,330:1	+G	7.4%	intergenic (+141/‑250)	insN → / → eyeA	pseudogene, IS911 transposase A;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/novel sRNA, function unknown, CP4‑6 propahge
RA	289,255	T→A	5.6%	intergenic (‑93/+46)	yagI ← / ← argF	CP4‑6 prophage; putative DNA‑binding transcriptional regulator/ornithine carbamoyltransferase 2, chain F; CP4‑6 prophage
RA	289,256	G→C	8.3%	intergenic (‑94/+45)	yagI ← / ← argF	CP4‑6 prophage; putative DNA‑binding transcriptional regulator/ornithine carbamoyltransferase 2, chain F; CP4‑6 prophage
RA	289,257	T→A	8.5%	intergenic (‑95/+44)	yagI ← / ← argF	CP4‑6 prophage; putative DNA‑binding transcriptional regulator/ornithine carbamoyltransferase 2, chain F; CP4‑6 prophage
RA	310,256	A→C	6.2%	L139R (CTG→CGG)	ecpA ←	ECP pilin
RA	310,259	G→T	6.1%	P138Q (CCG→CAG)	ecpA ←	ECP pilin
RA	314,255	T→C	14.7%	intergenic (‑450/‑102)	ykgP ← / → eaeH	pseudogene, oxidoreductase family/pseudogene, attaching and effacing protein homology;factor; Not classified
RA	314,258	G→A	15.5%	intergenic (‑453/‑99)	ykgP ← / → eaeH	pseudogene, oxidoreductase family/pseudogene, attaching and effacing protein homology;factor; Not classified
RA	337,061	G→C	8.0%	G95A (GGC→GCC)	yahF →	putative NAD(P)‑binding succinyl‑CoA synthase
RA	337,066	C→T	8.2%	H97Y (CAC→TAC) ‡	yahF →	putative NAD(P)‑binding succinyl‑CoA synthase
RA	337,067	A→G	8.2%	H97R (CAC→CGC) ‡	yahF →	putative NAD(P)‑binding succinyl‑CoA synthase
RA	337,072	G→C	8.2%	A99P (GCG→CCG)	yahF →	putative NAD(P)‑binding succinyl‑CoA synthase
RA	361,901	T→G	9.3%	intergenic (‑41/+25)	lacA ← / ← lacY	thiogalactoside acetyltransferase/lactose permease
RA	361,902	C→A	9.3%	intergenic (‑42/+24)	lacA ← / ← lacY	thiogalactoside acetyltransferase/lactose permease
RA	385,724	T→A	8.1%	W165R (TGG→AGG)	tauA →	taurine ABC transporter periplasmic binding protein
RA	394,472	G→A	6.2%	intergenic (+54/‑34)	yaiT → / → yaiV	pseudogene, autotransporter family;putative structure; Not classified; interrupted by IS3; putative flagellin structural protein/putative transcriptional regulator
RA	394,473	G→T	6.2%	intergenic (+55/‑33)	yaiT → / → yaiV	pseudogene, autotransporter family;putative structure; Not classified; interrupted by IS3; putative flagellin structural protein/putative transcriptional regulator
RA	394,474	A→C	6.1%	intergenic (+56/‑32)	yaiT → / → yaiV	pseudogene, autotransporter family;putative structure; Not classified; interrupted by IS3; putative flagellin structural protein/putative transcriptional regulator
RA	394,475	T→C	6.5%	intergenic (+57/‑31)	yaiT → / → yaiV	pseudogene, autotransporter family;putative structure; Not classified; interrupted by IS3; putative flagellin structural protein/putative transcriptional regulator
RA	401,992	C→G	7.3%	A82A (GCC→GCG)	phoA →	bacterial alkaline phosphatase
RA	422,537	T→G	6.0%	L7R (CTG→CGG)	malZ →	maltodextrin glucosidase
RA	422,540	C→A	6.0%	P8Q (CCG→CAG)	malZ →	maltodextrin glucosidase
RA	435,390	T→A	5.2%	L85Q (CTG→CAG)	nusB →	transcription antitermination protein
RA	448,875	G→A	6.0%	S589S (AGC→AGT)	cyoB ←	cytochrome o ubiquinol oxidase subunit I
RA	454,853	T→C	8.4%	intergenic (+64/‑280)	bolA → / → tig	stationary‑phase morphogene, transcriptional repressor for mreB; also regulator for dacA, dacC, and ampC/peptidyl‑prolyl cis/trans isomerase (trigger factor)
RA	454,856	G→A	8.5%	intergenic (+67/‑277)	bolA → / → tig	stationary‑phase morphogene, transcriptional repressor for mreB; also regulator for dacA, dacC, and ampC/peptidyl‑prolyl cis/trans isomerase (trigger factor)
RA	475,971	C→G	8.4%	intergenic (+20/+11)	ybaY → / ← ybaZ	outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL
RA	475,972	C→G	8.4%	intergenic (+21/+10)	ybaY → / ← ybaZ	outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL
RA	499,459	A→C	6.5%	L172R (CTC→CGC) ‡	aes ←	acetyl esterase
RA	499,460	G→T	6.7%	L172I (CTC→ATC) ‡	aes ←	acetyl esterase
RA	518,860	A→G	8.5%	F97S (TTC→TCC)	ybbO ←	putative oxidoreductase
RA	518,863	C→T	8.7%	G96E (GGA→GAA)	ybbO ←	putative oxidoreductase
RA	533,846	T→C	5.7%	intergenic (+20/‑70)	allR → / → gcl	glyoxylate‑inducible transcriptional repressor of all and gcl operons/glyoxylate carboligase
RA	533,849	G→A	5.4%	intergenic (+23/‑67)	allR → / → gcl	glyoxylate‑inducible transcriptional repressor of all and gcl operons/glyoxylate carboligase
RA	543,091	G→C	19.1%	intergenic (+58/+170)	glxK → / ← allE	glycerate kinase II/S‑ureidoglycine aminohydrolase
RA	543,094	G→C	19.1%	intergenic (+61/+167)	glxK → / ← allE	glycerate kinase II/S‑ureidoglycine aminohydrolase
RA	553,889	T→C	8.3%	I18V (ATC→GTC)	lpxH ←	UDP‑2,3‑diacylglucosamine pyrophosphohydrolase
RA	569,160	G→T	11.7%	D87Y (GAC→TAC) ‡	ybcK →	DLP12 prophage; putative recombinase
RA	569,161	A→C	11.5%	D87A (GAC→GCC) ‡	ybcK →	DLP12 prophage; putative recombinase
RA	569,757	G→A	5.4%	A286T (GCA→ACA)	ybcK →	DLP12 prophage; putative recombinase
RA	595,519	T→A	9.9%	intergenic (‑76/‑81)	cusR ← / → cusC	response regulator in two‑component regulatory system with CusS/copper/silver efflux system, outer membrane component
RA	595,520	T→A	9.9%	intergenic (‑77/‑80)	cusR ← / → cusC	response regulator in two‑component regulatory system with CusS/copper/silver efflux system, outer membrane component
RA	603,391	C→G	12.9%	intergenic (+56/+25)	pheP → / ← ybdG	phenylalanine transporter/mechanosensitive channel protein, miniconductance
RA	603,393	T→A	11.9%	intergenic (+58/+23)	pheP → / ← ybdG	phenylalanine transporter/mechanosensitive channel protein, miniconductance
RA	603,395	C→G	11.9%	intergenic (+60/+21)	pheP → / ← ybdG	phenylalanine transporter/mechanosensitive channel protein, miniconductance
RA	604,752	G→T	13.6%	intergenic (‑89/+19)	ybdG ← / ← nfsB	mechanosensitive channel protein, miniconductance/dihydropteridine reductase, NAD(P)H‑dependent, oxygen‑insensitive
RA	604,753	A→C	13.6%	intergenic (‑90/+18)	ybdG ← / ← nfsB	mechanosensitive channel protein, miniconductance/dihydropteridine reductase, NAD(P)H‑dependent, oxygen‑insensitive
RA	615,275	T→A	5.4%	G373G (GGT→GGA)	entF →	enterobactin synthase multienzyme complex component, ATP‑dependent
RA	619,410	T→C	7.3%	T264A (ACG→GCG)	fepC ←	ferrienterobactin ABC transporter ATPase
RA	619,414	T→G	7.3%	G262G (GGA→GGC) ‡	fepC ←	ferrienterobactin ABC transporter ATPase
RA	619,415	C→A	7.0%	G262V (GGA→GTA) ‡	fepC ←	ferrienterobactin ABC transporter ATPase
RA	619,419	G→A	6.9%	L261F (CTC→TTC)	fepC ←	ferrienterobactin ABC transporter ATPase
RA	636,273	C→T	5.2%	T99T (ACG→ACA)	ybdN ←	PAPS reductase‑like domain protein
RA	639,654	T→C	7.1%	intergenic (+146/‑99)	ahpC → / → ahpF	alkyl hydroperoxide reductase, C22 subunit/alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding
RA	639,657	G→A	6.8%	intergenic (+149/‑96)	ahpC → / → ahpF	alkyl hydroperoxide reductase, C22 subunit/alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding
RA	654,560	A→C	8.5%	intergenic (+18/+23)	citB → / ← dcuC	response regulator in two‑component regulatory system with CitA/anaerobic C4‑dicarboxylate transport
RA	654,563	C→G	8.2%	intergenic (+21/+20)	citB → / ← dcuC	response regulator in two‑component regulatory system with CitA/anaerobic C4‑dicarboxylate transport
RA	681,448	G→A	5.6%	A413T (GCT→ACT)	djlC →	J domain‑containing HscC co‑chaperone; Hsc56
RA	691,858	T→G	7.0%	intergenic (‑74/+16)	ybeX ← / ← ybeY	putative ion transport/ssRNA‑specific endoribonuclease; 16S rRNA 3' end maturation and quality control co‑endoribonuclease working with RNase R; rRNA transcription antitermination factor
RA	691,861	A→T	6.9%	intergenic (‑77/+13)	ybeX ← / ← ybeY	putative ion transport/ssRNA‑specific endoribonuclease; 16S rRNA 3' end maturation and quality control co‑endoribonuclease working with RNase R; rRNA transcription antitermination factor
RA	691,862	A→T	6.9%	intergenic (‑78/+12)	ybeX ← / ← ybeY	putative ion transport/ssRNA‑specific endoribonuclease; 16S rRNA 3' end maturation and quality control co‑endoribonuclease working with RNase R; rRNA transcription antitermination factor
RA	691,865	C→A	7.0%	intergenic (‑81/+9)	ybeX ← / ← ybeY	putative ion transport/ssRNA‑specific endoribonuclease; 16S rRNA 3' end maturation and quality control co‑endoribonuclease working with RNase R; rRNA transcription antitermination factor
RA	699,556	C→T	13.2%	intergenic (‑379/+18)	asnB ← / ← umpH	asparagine synthetase B/UMP phosphatase
RA	699,559	A→G	12.0%	intergenic (‑382/+15)	asnB ← / ← umpH	asparagine synthetase B/UMP phosphatase
RA	710,173	A→G	6.0%	intergenic (+57/+27)	chiQ → / ← fur	chitosugar‑induced verified lipoprotein/ferric iron uptake regulon transcriptional repressor; autorepressor
RA	770,679	G→T	17.5%	intergenic (+68/‑779)	mngB → / → cydA	alpha‑mannosidase/cytochrome d terminal oxidase, subunit I
RA	770,682	A→C	17.5%	intergenic (+71/‑776)	mngB → / → cydA	alpha‑mannosidase/cytochrome d terminal oxidase, subunit I
RA	773,138	G→A	7.5%	G33S (GGC→AGC)	cydB →	cytochrome d terminal oxidase, subunit II
RA	781,668	C→T	9.8%	intergenic (+16/‑417)	lysQ → / → nadA	tRNA‑Lys/quinolinate synthase, subunit A
RA	781,670	A→T	9.4%	intergenic (+18/‑415)	lysQ → / → nadA	tRNA‑Lys/quinolinate synthase, subunit A
RA	781,672	A→G	9.4%	intergenic (+20/‑413)	lysQ → / → nadA	tRNA‑Lys/quinolinate synthase, subunit A
RA	786,031	T→C	5.3%	I133I (ATT→ATC)	aroG →	3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, phenylalanine repressible
RA	787,467	C→G	8.2%	K43N (AAG→AAC) ‡	gpmA ←	phosphoglyceromutase 1
RA	787,469	T→A	8.1%	K43* (AAG→TAG) ‡	gpmA ←	phosphoglyceromutase 1
RA	787,471	C→G	7.9%	G42A (GGT→GCT)	gpmA ←	phosphoglyceromutase 1
RA	788,374	C→T	6.8%	R155H (CGT→CAT)	galM ←	aldose 1‑epimerase; type‑1 mutarotase; galactose mutarotase
RA	835,208	T→C	5.7%	R713R (CGT→CGC)	dinG →	ATP‑dependent DNA helicase
RA	835,211	G→A	5.9%	R714R (CGG→CGA)	dinG →	ATP‑dependent DNA helicase
RA	847,213	A→T	9.7%	intergenic (‑94/+45)	glnP ← / ← glnH	glutamine transporter subunit/glutamine transporter subunit
RA	847,214	T→A	9.6%	intergenic (‑95/+44)	glnP ← / ← glnH	glutamine transporter subunit/glutamine transporter subunit
RA	847,215	A→T	9.9%	intergenic (‑96/+43)	glnP ← / ← glnH	glutamine transporter subunit/glutamine transporter subunit
RA	850,993	T→C	11.4%	intergenic (+28/+21)	ompX → / ← opgE	outer membrane protein X/OPG biosynthetic transmembrane phosphoethanolamine transferase
RA	850,995	T→G	11.4%	intergenic (+30/+19)	ompX → / ← opgE	outer membrane protein X/OPG biosynthetic transmembrane phosphoethanolamine transferase
RA	850,996	C→A	11.3%	intergenic (+31/+18)	ompX → / ← opgE	outer membrane protein X/OPG biosynthetic transmembrane phosphoethanolamine transferase
RA	850,998	G→A	11.8%	intergenic (+33/+16)	ompX → / ← opgE	outer membrane protein X/OPG biosynthetic transmembrane phosphoethanolamine transferase
RA	857,576	T→C	11.5%	intergenic (+21/+220)	ybiT → / ← ybiU	ABC‑F family putative regulatory ATPase/DUF1479 family protein
RA	857,578	C→G	12.0%	intergenic (+23/+218)	ybiT → / ← ybiU	ABC‑F family putative regulatory ATPase/DUF1479 family protein
RA	857,580	G→A	12.0%	intergenic (+25/+216)	ybiT → / ← ybiU	ABC‑F family putative regulatory ATPase/DUF1479 family protein
RA	899,656	T→C	10.0%	intergenic (+11/+188)	rlmC → / ← artJ	23S rRNA m(5)U747 methyltransferase, SAM‑dependent/arginine ABC transporter periplasmic binding protein
RA	899,657	G→A	10.0%	intergenic (+12/+187)	rlmC → / ← artJ	23S rRNA m(5)U747 methyltransferase, SAM‑dependent/arginine ABC transporter periplasmic binding protein
RA	915,080	G→C	9.5%	intergenic (‑223/+272)	ybjE ← / ← aqpZ	putative transporter/aquaporin Z
RA	915,081	G→C	9.5%	intergenic (‑224/+271)	ybjE ← / ← aqpZ	putative transporter/aquaporin Z
RA	926,180	A→G	7.5%	intergenic (‑209/+45)	serW ← / ← infA	tRNA‑Ser/translation initiation factor IF‑1
RA	940,751	T→C	16.0%	intergenic (+31/‑208)	serS → / → dmsA	seryl‑tRNA synthetase/dimethyl sulfoxide reductase, anaerobic, subunit A
RA	940,754	G→A	16.0%	intergenic (+34/‑205)	serS → / → dmsA	seryl‑tRNA synthetase/dimethyl sulfoxide reductase, anaerobic, subunit A
RA	964,148	T→C	9.3%	intergenic (+36/‑172)	ihfB → / → ycaI	integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein
RA	964,150	T→A	9.3%	intergenic (+38/‑170)	ihfB → / → ycaI	integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein
RA	964,152	G→A	9.1%	intergenic (+40/‑168)	ihfB → / → ycaI	integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein
RA	965,520	A→G	5.1%	I401V (ATC→GTC)	ycaI →	ComEC family inner membrane protein
RA	968,109	C→T	5.8%	R497C (CGT→TGT)	msbA →	lipid ABC transporter permease/ATPase
RA	987,560	G→C	12.5%	intergenic (‑578/+25)	ompF ← / ← asnS	outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
RA	987,561	G→C	12.7%	intergenic (‑579/+24)	ompF ← / ← asnS	outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
RA	1,015,912	T→A	25.0%	intergenic (+30/+40)	rmf → / ← fabA	ribosome modulation factor/beta‑hydroxydecanoyl thioester dehydrase
RA	1,018,983	A→T	8.0%	intergenic (+46/+30)	matP → / ← ompA	Ter macrodomain organizer matS‑binding protein/outer membrane protein A (3a;II*;G;d)
RA	1,018,986	A→T	7.7%	intergenic (+49/+27)	matP → / ← ompA	Ter macrodomain organizer matS‑binding protein/outer membrane protein A (3a;II*;G;d)
RA	1,038,117	C→G	5.3%	H126Q (CAC→CAG)	cbdA →	cytochrome bd‑II oxidase, subunit I
RA	1,038,118	C→G	5.3%	L127V (CTG→GTG)	cbdA →	cytochrome bd‑II oxidase, subunit I
RA	1,041,937	T→G	13.8%	intergenic (+22/+93)	appA → / ← etk	phosphoanhydride phosphorylase/tyrosine‑protein kinase, role in O‑antigen capsule formation
RA	1,041,940	C→A	12.5%	intergenic (+25/+90)	appA → / ← etk	phosphoanhydride phosphorylase/tyrosine‑protein kinase, role in O‑antigen capsule formation
RA	1,056,568	C→A	5.7%	A103E (GCA→GAA)	torT →	periplasmic sensory protein associated with the TorRS two‑component regulatory system
RA	1,064,160	T→C	6.2%	L42P (CTG→CCG) ‡	yccE →	uncharacterized protein
RA	1,064,161	G→A	6.3%	L42L (CTG→CTA) ‡	yccE →	uncharacterized protein
RA	1,131,310	A→T	5.4%	N98I (AAT→ATT)	flgB →	flagellar component of cell‑proximal portion of basal‑body rod
RA	1,147,980	G→T	8.0%	K120N (AAG→AAT)	plsX →	putative phosphate acyltransferase
RA	1,147,986	G→C	8.1%	L122L (CTG→CTC)	plsX →	putative phosphate acyltransferase
RA	1,147,987	G→C	8.1%	E123Q (GAG→CAG)	plsX →	putative phosphate acyltransferase
RA	1,147,993	A→C	10.9%	I125L (ATT→CTT)	plsX →	putative phosphate acyltransferase
RA	1,153,208	T→C	10.0%	intergenic (+28/‑92)	fabF → / → pabC	3‑oxoacyl‑[acyl‑carrier‑protein] synthase II/4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex
RA	1,153,213	T→A	8.8%	intergenic (+33/‑87)	fabF → / → pabC	3‑oxoacyl‑[acyl‑carrier‑protein] synthase II/4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex
RA	1,153,214	T→A	8.7%	intergenic (+34/‑86)	fabF → / → pabC	3‑oxoacyl‑[acyl‑carrier‑protein] synthase II/4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex
RA	1,153,219	G→A	8.6%	intergenic (+39/‑81)	fabF → / → pabC	3‑oxoacyl‑[acyl‑carrier‑protein] synthase II/4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex
RA	1,174,077	G→A	15.8%	intergenic (‑113/+15)	mfd ← / ← ycfT	transcription‑repair coupling factor/inner membrane protein
RA	1,174,080	T→C	15.6%	intergenic (‑116/+12)	mfd ← / ← ycfT	transcription‑repair coupling factor/inner membrane protein
JC JC	1,293,124	IS5 (+) +4 bp	12.2%	intergenic (‑202/‑400)	hns ← / → tdk	global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase
JC JC	1,293,196	IS5 (+) +4 bp	7.7%	intergenic (‑274/‑328)	hns ← / → tdk	global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase
RA	1,299,267:1	+A	11.1%	intergenic (+22/‑1915)	ychE → / → oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
RA	1,299,270	C→G	11.4%	intergenic (+25/‑1912)	ychE → / → oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
RA	1,299,273	Δ1 bp	10.7%	intergenic (+28/‑1909)	ychE → / → oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
RA	1,306,787	G→A	12.0%	intergenic (+19/+34)	oppF → / ← yciU	oligopeptide ABC transporter ATPase/UPF0263 family protein
RA	1,306,788	T→C	14.4%	intergenic (+20/+33)	oppF → / ← yciU	oligopeptide ABC transporter ATPase/UPF0263 family protein
RA	1,315,796	A→G	9.1%	intergenic (‑26/+60)	yciF ← / ← yciG	putative rubrerythrin/ferritin‑like metal‑binding protein/KGG family protein
RA	1,315,800	A→G	9.1%	intergenic (‑30/+56)	yciF ← / ← yciG	putative rubrerythrin/ferritin‑like metal‑binding protein/KGG family protein
RA	1,315,803	C→T	9.1%	intergenic (‑33/+53)	yciF ← / ← yciG	putative rubrerythrin/ferritin‑like metal‑binding protein/KGG family protein
RA	1,315,807	C→T	8.9%	intergenic (‑37/+49)	yciF ← / ← yciG	putative rubrerythrin/ferritin‑like metal‑binding protein/KGG family protein
RA	1,324,837	A→C	11.4%	Y31S (TAT→TCT) ‡	yciQ →	enhancer of membrane protein expression; putative inner membrane protein
RA	1,324,838	T→A	11.7%	Y31* (TAT→TAA) ‡	yciQ →	enhancer of membrane protein expression; putative inner membrane protein
RA	1,324,839	G→T	12.2%	E32* (GAA→TAA)	yciQ →	enhancer of membrane protein expression; putative inner membrane protein
RA	1,355,187	A→G	6.7%	V95A (GTG→GCG) ‡	sapB ←	antimicrobial peptide transport ABC transporter permease
RA	1,355,188	C→T	6.5%	V95M (GTG→ATG) ‡	sapB ←	antimicrobial peptide transport ABC transporter permease
RA	1,359,877	C→A	16.1%	Q344H (CAG→CAT) ‡	puuA ←	glutamate‑‑putrescine ligase
RA	1,359,878	T→G	16.5%	Q344P (CAG→CCG) ‡	puuA ←	glutamate‑‑putrescine ligase
RA	1,371,933	T→A	6.0%	L9I (TTA→ATA)	ycjN →	putative ABC sugar transporter periplasmic binding protein
RA	1,371,936	T→A	5.8%	S10T (TCA→ACA)	ycjN →	putative ABC sugar transporter periplasmic binding protein
RA	1,381,915	G→T	8.0%	intergenic (+13/‑32)	ycjV → / → ompG	pseudogene; putative ATP‑binding component of a transport system/outer membrane porin G
RA	1,381,918	A→C	8.0%	intergenic (+16/‑29)	ycjV → / → ompG	pseudogene; putative ATP‑binding component of a transport system/outer membrane porin G
RA	1,395,008	T→C	5.6%	A305A (GCA→GCG) ‡	ynaI ←	mechanosensitive channel protein, very small conductance
RA	1,395,009	G→A	5.8%	A305V (GCA→GTA) ‡	ynaI ←	mechanosensitive channel protein, very small conductance
RA	1,449,050	T→A	11.9%	intergenic (+32/+26)	feaB → / ← tynA	phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring
RA	1,453,159	A→T	6.6%	W162R (TGG→AGG)	paaZ ←	oxepin‑CoA hydrolase and 3‑oxo‑5,6‑dehydrosuberyl‑CoA semialdehyde dehydrogenase
RA	1,453,162	A→T	6.6%	C161S (TGC→AGC)	paaZ ←	oxepin‑CoA hydrolase and 3‑oxo‑5,6‑dehydrosuberyl‑CoA semialdehyde dehydrogenase
RA	1,483,342	G→C	5.9%	Q94H (CAG→CAC)	hrpA →	putative ATP‑dependent helicase
RA	1,483,343	G→C	5.9%	V95L (GTG→CTG)	hrpA →	putative ATP‑dependent helicase
RA	1,498,892	A→T	16.7%	intergenic (+17/‑46)	ydcH → / → rimL	DUF465 family protein/ribosomal‑protein‑L7/L12‑serine acetyltransferase
RA	1,498,894	C→G	16.7%	intergenic (+19/‑44)	ydcH → / → rimL	DUF465 family protein/ribosomal‑protein‑L7/L12‑serine acetyltransferase
RA	1,498,896	A→T	16.7%	intergenic (+21/‑42)	ydcH → / → rimL	DUF465 family protein/ribosomal‑protein‑L7/L12‑serine acetyltransferase
RA	1,557,297	C→A	6.6%	A248S (GCC→TCC)	ddpF ←	D,D‑dipeptide ABC transporter ATPase
RA	1,573,873	C→T	6.6%	A444T (GCG→ACG)	pqqL ←	putative periplasmic M16 family zinc metalloendopeptidase
RA	1,620,224	C→G	13.9%	intergenic (+17/+14)	marB → / ← eamA	periplasmic mar operon regulator/cysteine and O‑acetyl‑L‑serine efflux system
RA	1,620,227	C→G	11.7%	intergenic (+20/+11)	marB → / ← eamA	periplasmic mar operon regulator/cysteine and O‑acetyl‑L‑serine efflux system
RA	1,642,370	C→G	12.5%	intergenic (+303/+119)	cspF → / ← quuQ	Qin prophage; cold shock protein/Qin prophage; putative antitermination protein Q
RA	1,642,373	C→G	12.5%	intergenic (+306/+116)	cspF → / ← quuQ	Qin prophage; cold shock protein/Qin prophage; putative antitermination protein Q
RA	1,672,481	A→T	6.5%	A174A (GCA→GCT)	ydgD →	putative peptidase
RA	1,672,484	A→T	6.2%	L175F (TTA→TTT)	ydgD →	putative peptidase
RA	1,672,487	A→T	6.2%	K176N (AAA→AAT)	ydgD →	putative peptidase
RA	1,674,177	G→T	5.1%	E89* (GAG→TAG)	tqsA →	pheromone AI‑2 transporter
RA	1,684,016	A→G	8.9%	S379G (AGC→GGC)	rstB →	sensory histidine kinase of RstAB two‑component system
RA	1,684,019	C→T	8.9%	R380W (CGG→TGG)	rstB →	sensory histidine kinase of RstAB two‑component system
RA	1,685,527	A→G	100%	G354G (GGT→GGC)	fumC ←	fumarate hydratase (fumarase C),aerobic Class II
RA	1,698,585	T→G	5.4%	E199A (GAA→GCA)	malI ←	transcriptional repressor of Mal regulon
RA	1,698,587	T→A	5.7%	A198A (GCA→GCT) ‡	malI ←	transcriptional repressor of Mal regulon
RA	1,698,589	C→A	5.9%	A198S (GCA→TCA) ‡	malI ←	transcriptional repressor of Mal regulon
RA	1,701,108	A→T	8.9%	N51I (AAT→ATT)	malY →	PLP‑dependent beta‑cystathionase and maltose regulon regulator
RA	1,707,755	T→A	7.2%	A279A (GCT→GCA)	rsxC →	SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
RA	1,707,758	T→A	7.0%	Y280* (TAT→TAA)	rsxC →	SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
RA	1,715,919	T→G	5.3%	intergenic (‑30/+29)	pdxY ← / ← tyrS	pyridoxamine kinase/tyrosyl‑tRNA synthetase
RA	1,715,920	T→A	5.3%	intergenic (‑31/+28)	pdxY ← / ← tyrS	pyridoxamine kinase/tyrosyl‑tRNA synthetase
RA	1,715,921	T→A	5.3%	intergenic (‑32/+27)	pdxY ← / ← tyrS	pyridoxamine kinase/tyrosyl‑tRNA synthetase
RA	1,772,240	A→G	6.7%	K390K (AAA→AAG)	ydiM →	putative MFS transporter, membrane protein
RA	1,802,536	C→T	5.9%	R12H (CGC→CAC)	thrS ←	threonyl‑tRNA synthetase
RA	1,814,906	T→C	5.7%	F347S (TTC→TCC)	katE →	catalase HPII, heme d‑containing
RA	1,881,373	A→G	9.5%	I146T (ATT→ACT)	dmlR ←	transcriptional activator of dmlA
RA	1,883,027	C→G	11.4%	intergenic (+30/‑161)	dmlA → / → yeaV	D‑malate oxidase, NAD‑dependent; putative tartrate dehydrogenase/putative transporter
RA	1,901,029	Δ1 bp	10.2%	coding (557/1557 nt)	yoaE ←	putative membrane protein/conserved protein
RA	1,901,034	C→G	10.2%	T184T (ACG→ACC)	yoaE ←	putative membrane protein/conserved protein
RA	1,901,038:1	+T	10.0%	coding (548/1557 nt)	yoaE ←	putative membrane protein/conserved protein
RA	1,906,124	Δ1 bp	5.1%	coding (437/567 nt)	mntP →	putative Mn(2+) efflux pump, mntR‑regulated
RA	1,906,231	C→A	6.3%	L182I (CTC→ATC)	mntP →	putative Mn(2+) efflux pump, mntR‑regulated
RA	1,910,295	A→T	11.1%	D7V (GAC→GTC)	yebQ →	putative transporter
RA	1,950,954	Δ1 bp	11.1%	coding (123/567 nt)	yecD →	isochorismatase family protein
RA	1,976,529	T→C	9.1%	H204R (CAT→CGT) ‡	motA ←	proton conductor component of flagella motor
RA	1,976,530	G→A	9.1%	H204Y (CAT→TAT) ‡	motA ←	proton conductor component of flagella motor
MC JC	1,978,503	Δ776 bp	100%		insB1–insA	insB1, insA
RA	1,985,112	C→G	11.9%	intergenic (‑43/+27)	araG ← / ← araF	L‑arabinose ABC transporter ATPase/L‑arabinose ABC transporter periplasmic binding protein
RA	1,987,442	Δ1 bp	5.7%	intergenic (+14/+65)	ftnB → / ← yecJ	ferritin B, putative ferrous iron reservoir/DUF2766 family protein
RA	1,987,450:1	+A	6.1%	intergenic (+22/+57)	ftnB → / ← yecJ	ferritin B, putative ferrous iron reservoir/DUF2766 family protein
RA	1,987,857	C→T	6.7%	intergenic (‑99/+16)	yecJ ← / ← azuC	DUF2766 family protein/acid‑inducible small membrane‑associated protein
RA	1,987,858	G→C	6.8%	intergenic (‑100/+15)	yecJ ← / ← azuC	DUF2766 family protein/acid‑inducible small membrane‑associated protein
RA	1,987,859	G→C	6.7%	intergenic (‑101/+14)	yecJ ← / ← azuC	DUF2766 family protein/acid‑inducible small membrane‑associated protein
RA	1,987,860	A→G	6.5%	intergenic (‑102/+13)	yecJ ← / ← azuC	DUF2766 family protein/acid‑inducible small membrane‑associated protein
RA	2,009,733	C→T	13.0%	intergenic (+21/‑88)	yedF → / → yedK	putative TusA family sulfurtransferase/DUF159 family protein
RA	2,062,354	T→A	7.5%	intergenic (+19/+37)	asnV → / ← ldtA	tRNA‑Asn/L,D‑transpeptidase linking Lpp to murein
RA	2,062,355	T→G	7.5%	intergenic (+20/+36)	asnV → / ← ldtA	tRNA‑Asn/L,D‑transpeptidase linking Lpp to murein
RA	2,062,356	C→A	7.5%	intergenic (+21/+35)	asnV → / ← ldtA	tRNA‑Asn/L,D‑transpeptidase linking Lpp to murein
RA	2,062,357	T→A	7.5%	intergenic (+22/+34)	asnV → / ← ldtA	tRNA‑Asn/L,D‑transpeptidase linking Lpp to murein
RA	2,072,718	G→A	7.8%	A394T (GCT→ACT)	flu →	CP4‑44 prophage; antigen 43 (Ag43) phase‑variable biofilm formation autotransporter
RA	2,074,691	C→G	10.3%	intergenic (+33/‑88)	flu → / → yeeR	CP4‑44 prophage; antigen 43 (Ag43) phase‑variable biofilm formation autotransporter/CP4‑44 prophage; putative membrane protein
RA	2,079,004	G→C	8.2%	intergenic (+73/+28)	yoeF → / ← yeeX	pseudogene, CP4‑44 putative prophage remnant;Phage or Prophage Related/UPF0265 family protein
RA	2,089,854	A→T	10.3%	intergenic (‑141/‑142)	yefM ← / → hisL	antitoxin of the YoeB‑YefM toxin‑antitoxin system/his operon leader peptide
RA	2,090,122	A→G	19.4%	intergenic (+76/‑70)	hisL → / → hisG	his operon leader peptide/ATP phosphoribosyltransferase
RA	2,090,124	C→G	18.8%	intergenic (+78/‑68)	hisL → / → hisG	his operon leader peptide/ATP phosphoribosyltransferase
RA	2,090,126	C→T	18.6%	intergenic (+80/‑66)	hisL → / → hisG	his operon leader peptide/ATP phosphoribosyltransferase
RA	2,140,400	G→A	8.8%	R405W (CGG→TGG)	asmA ←	suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein
RA	2,140,401	T→C	8.8%	P404P (CCA→CCG)	asmA ←	suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein
RA	2,145,313	C→A	100%	S683Y (TCC→TAC)	yegE →	putative diguanylate cyclase
RA	2,168,420	A→T	6.7%	intergenic (‑114/‑292)	yegR ← / → yegS	uncharacterized protein/phosphatidylglycerol kinase, metal‑dependent
RA	2,168,423	A→T	8.1%	intergenic (‑117/‑289)	yegR ← / → yegS	uncharacterized protein/phosphatidylglycerol kinase, metal‑dependent
RA	2,172,350	A→T	10.0%	L175Q (CTG→CAG)	gatD ←	galactitol‑1‑phosphate dehydrogenase, Zn‑dependent and NAD(P)‑binding
RA	2,172,353	A→T	9.8%	L174Q (CTG→CAG)	gatD ←	galactitol‑1‑phosphate dehydrogenase, Zn‑dependent and NAD(P)‑binding
RA	2,173,361	Δ2 bp	100%	pseudogene (1‑2/442 nt)	gatC ←	pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC
RA	2,177,332	C→T	7.3%	intergenic (‑128/+180)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,177,337	G→T	7.0%	intergenic (‑133/+175)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,177,340	A→C	7.1%	intergenic (‑136/+172)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,247,030	G→A	7.3%	intergenic (‑261/+33)	cirA ← / ← lysP	colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter/lysine transporter
RA	2,247,031	G→A	7.3%	intergenic (‑262/+32)	cirA ← / ← lysP	colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter/lysine transporter
RA	2,247,032	T→C	7.7%	intergenic (‑263/+31)	cirA ← / ← lysP	colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter/lysine transporter
RA	2,247,033	T→C	7.7%	intergenic (‑264/+30)	cirA ← / ← lysP	colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter/lysine transporter
RA	2,260,769	C→T	6.7%	T214T (ACG→ACA)	fruA ←	fused fructose‑specific PTS enzymes: IIBcomponent/IIC components
RA	2,270,602	T→C	7.0%	intergenic (+57/‑124)	mepS → / → rtn	murein DD‑endopeptidase, space‑maker hydrolase, mutational suppressor of prc thermosensitivity, outer membrane lipoprotein, weak murein LD‑carboxypeptidase/resistance protein for phages lambda and N4, putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase
RA	2,270,605	G→A	7.0%	intergenic (+60/‑121)	mepS → / → rtn	murein DD‑endopeptidase, space‑maker hydrolase, mutational suppressor of prc thermosensitivity, outer membrane lipoprotein, weak murein LD‑carboxypeptidase/resistance protein for phages lambda and N4, putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase
RA	2,286,311	C→G	10.2%	intergenic (+24/+79)	proL → / ← yejO	tRNA‑Pro/pseudogene, autotransporter outer membrane homology;putative transport; Not classified; putative ATP‑binding component of a transport system
RA	2,286,313	T→A	10.2%	intergenic (+26/+77)	proL → / ← yejO	tRNA‑Pro/pseudogene, autotransporter outer membrane homology;putative transport; Not classified; putative ATP‑binding component of a transport system
RA	2,286,315	C→G	9.4%	intergenic (+28/+75)	proL → / ← yejO	tRNA‑Pro/pseudogene, autotransporter outer membrane homology;putative transport; Not classified; putative ATP‑binding component of a transport system
RA	2,288,232	T→C	5.8%	pseudogene (683/2525 nt)	yejO ←	pseudogene, autotransporter outer membrane homology;putative transport; Not classified; putative ATP‑binding component of a transport system
RA	2,297,451	T→A	7.4%	Q65L (CAG→CTG)	ccmA ←	heme export ABC transporter ATPase
RA	2,302,452	A→C	7.5%	L101R (CTG→CGG)	napA ←	nitrate reductase, periplasmic, large subunit
RA	2,302,455	G→T	6.2%	P100Q (CCG→CAG)	napA ←	nitrate reductase, periplasmic, large subunit
RA	2,305,007	G→A	15.4%	intergenic (+614/+101)	eco → / ← mqo	ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain
RA	2,305,085	A→G	22.7%	intergenic (+692/+23)	eco → / ← mqo	ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain
RA	2,305,086	C→G	23.8%	intergenic (+693/+22)	eco → / ← mqo	ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain
RA	2,305,087	C→T	23.8%	intergenic (+694/+21)	eco → / ← mqo	ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain
RA	2,311,616	C→T	11.2%	intergenic (‑82/+30)	apbE ← / ← ompC	putative thiamine‑synthetic flavin transferase lipoprotein/outer membrane porin protein C
RA	2,311,619	A→G	9.7%	intergenic (‑85/+27)	apbE ← / ← ompC	putative thiamine‑synthetic flavin transferase lipoprotein/outer membrane porin protein C
RA	2,314,800	A→C	7.1%	Q438P (CAG→CCG) ‡	rcsD →	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
RA	2,314,801	G→T	7.1%	Q438H (CAG→CAT) ‡	rcsD →	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
RA	2,318,095	C→G	100%	L594F (TTG→TTC)	rcsC ←	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN
RA	2,325,037:1	+T	9.0%	coding (282/1323 nt)	atoE →	short chain fatty acid transporter
RA	2,325,042	Δ1 bp	9.0%	coding (287/1323 nt)	atoE →	short chain fatty acid transporter
RA	2,328,157	T→A	5.6%	L547F (TTA→TTT)	yfaQ ←	tandem DUF2300 domain protein, putative host defense protein
RA	2,329,490	G→A	10.6%	T103I (ACC→ATC)	yfaQ ←	tandem DUF2300 domain protein, putative host defense protein
RA	2,329,493	T→C	10.9%	D102G (GAT→GGT)	yfaQ ←	tandem DUF2300 domain protein, putative host defense protein
RA	2,367,640	C→A	5.8%	I190I (ATC→ATA)	arnC →	undecaprenyl phosphate‑L‑Ara4FN transferase
RA	2,383,956	A→T	14.3%	intergenic (+32/+39)	elaD → / ← yfbK	protease, capable of cleaving an AMC‑ubiquitin model substrate/Von Willebrand factor domain putative lipoprotein
RA	2,383,959	A→T	14.3%	intergenic (+35/+36)	elaD → / ← yfbK	protease, capable of cleaving an AMC‑ubiquitin model substrate/Von Willebrand factor domain putative lipoprotein
RA	2,427,622	T→G	6.9%	N57T (AAC→ACC)	argT ←	lysine/arginine/ornithine transporter subunit
RA	2,427,625	C→A	6.9%	G56V (GGT→GTT)	argT ←	lysine/arginine/ornithine transporter subunit
RA	2,432,985	A→G	7.8%	intergenic (‑43/+27)	folC ← / ← accD	bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit
RA	2,432,990	G→C	9.1%	intergenic (‑48/+22)	folC ← / ← accD	bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit
RA	2,474,878	T→C	13.6%	intergenic (+22/‑106)	yfdQ → / → yfdR	CPS‑53 (KpLE1) prophage; uncharacterized protein/CPS‑53 (KpLE1) prophage; conserved protein
RA	2,474,881	G→A	13.4%	intergenic (+25/‑103)	yfdQ → / → yfdR	CPS‑53 (KpLE1) prophage; uncharacterized protein/CPS‑53 (KpLE1) prophage; conserved protein
RA	2,482,839	C→G	7.4%	L167F (TTG→TTC)	emrK ←	multidrug resistance efflux pump membrane fusion protein
RA	2,497,023	A→T	10.3%	intergenic (+31/+34)	ypdK → / ← alaC	inner membrane protein/glutamate‑pyruvate aminotransferase; glutamic‑pyruvic transaminase (GPT); alanine transaminase
RA	2,497,024	T→G	10.1%	intergenic (+32/+33)	ypdK → / ← alaC	inner membrane protein/glutamate‑pyruvate aminotransferase; glutamic‑pyruvic transaminase (GPT); alanine transaminase
RA	2,497,025	C→A	9.8%	intergenic (+33/+32)	ypdK → / ← alaC	inner membrane protein/glutamate‑pyruvate aminotransferase; glutamic‑pyruvic transaminase (GPT); alanine transaminase
RA	2,497,026	A→T	10.1%	intergenic (+34/+31)	ypdK → / ← alaC	inner membrane protein/glutamate‑pyruvate aminotransferase; glutamic‑pyruvic transaminase (GPT); alanine transaminase
RA	2,533,495	C→T	8.3%	intergenic (+115/‑269)	cysK → / → ptsH	cysteine synthase A, O‑acetylserine sulfhydrolase A subunit/phosphohistidinoprotein‑hexose phosphotransferase component of PTS system (Hpr)
RA	2,535,976	G→T	100%	G48V (GGT→GTT)	crr →	glucose‑specific enzyme IIA component of PTS
RA	2,561,205	A→T	5.8%	intergenic (+307/‑163)	yffL → / → yffM	CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein
RA	2,561,206	A→T	5.8%	intergenic (+308/‑162)	yffL → / → yffM	CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein
RA	2,589,122	G→A	7.6%	G510S (GGC→AGC)	acrD →	aminoglycoside/multidrug efflux system
RA	2,589,125	T→C	8.2%	F511L (TTT→CTT)	acrD →	aminoglycoside/multidrug efflux system
RA	2,592,989	A→G	11.6%	intergenic (+27/+83)	ypfN → / ← ypfH	putative membrane protein, UPF0370 family/palmitoyl‑CoA esterase activity, uncertain physiological substrate
RA	2,592,990	A→C	11.6%	intergenic (+28/+82)	ypfN → / ← ypfH	putative membrane protein, UPF0370 family/palmitoyl‑CoA esterase activity, uncertain physiological substrate
RA	2,596,873	Δ1 bp	10.8%	intergenic (‑136/+32)	ypfJ ← / ← purC	putative neutral zinc metallopeptidase/phosphoribosylaminoimidazole‑succinocarboxamide synthetase
RA	2,596,878:1	+G	9.4%	intergenic (‑141/+27)	ypfJ ← / ← purC	putative neutral zinc metallopeptidase/phosphoribosylaminoimidazole‑succinocarboxamide synthetase
RA	2,601,696	G→C	6.3%	A166P (GCG→CCG)	hyfA →	hydrogenase 4, 4Fe‑4S subunit
RA	2,601,700	T→A	6.7%	L167* (TTA→TAA)	hyfA →	hydrogenase 4, 4Fe‑4S subunit
RA	2,622,348:1	+A	8.5%	coding (115/639 nt)	purN →	phosphoribosylglycinamide formyltransferase 1
RA	2,622,354	Δ1 bp	8.7%	coding (121/639 nt)	purN →	phosphoribosylglycinamide formyltransferase 1
RA	2,630,918	A→T	8.3%	intergenic (+53/+40)	yfgI → / ← guaA	nalidixic acid resistance protein, putative periplasmic protein/GMP synthetase (glutamine aminotransferase)
RA	2,630,919	G→A	8.4%	intergenic (+54/+39)	yfgI → / ← guaA	nalidixic acid resistance protein, putative periplasmic protein/GMP synthetase (glutamine aminotransferase)
RA	2,630,920	T→C	8.4%	intergenic (+55/+38)	yfgI → / ← guaA	nalidixic acid resistance protein, putative periplasmic protein/GMP synthetase (glutamine aminotransferase)
RA	2,630,921	A→T	8.4%	intergenic (+56/+37)	yfgI → / ← guaA	nalidixic acid resistance protein, putative periplasmic protein/GMP synthetase (glutamine aminotransferase)
RA	2,637,433	C→T	6.2%	intergenic (‑77/+41)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,637,438	T→G	7.4%	intergenic (‑82/+36)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,637,439	C→A	7.3%	intergenic (‑83/+35)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,637,444	A→G	6.3%	intergenic (‑88/+30)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,653,104	G→C	9.4%	W204S (TGG→TCG) ‡	sseA →	3‑mercaptopyruvate sulfurtransferase
RA	2,653,105	G→C	9.4%	W204C (TGG→TGC) ‡	sseA →	3‑mercaptopyruvate sulfurtransferase
RA	2,653,372	T→C	6.9%	intergenic (+33/‑483)	sseA → / → ryfA	3‑mercaptopyruvate sulfurtransferase/novel sRNA, function unknown
RA	2,654,142	T→A	9.1%	noncoding (288/304 nt)	ryfA →	novel sRNA, function unknown
RA	2,654,143	T→A	9.1%	noncoding (289/304 nt)	ryfA →	novel sRNA, function unknown
RA	2,654,144	T→A	9.1%	noncoding (290/304 nt)	ryfA →	novel sRNA, function unknown
RA	2,656,386	C→T	8.7%	intergenic (‑28/+150)	pepB ← / ← iscX	aminopeptidase B/Fe(2+) donor and activity modulator for cysteine desulfurase
RA	2,656,391	G→A	7.1%	intergenic (‑33/+145)	pepB ← / ← iscX	aminopeptidase B/Fe(2+) donor and activity modulator for cysteine desulfurase
RA	2,656,392	T→C	7.2%	intergenic (‑34/+144)	pepB ← / ← iscX	aminopeptidase B/Fe(2+) donor and activity modulator for cysteine desulfurase
RA	2,656,397	A→G	6.6%	intergenic (‑39/+139)	pepB ← / ← iscX	aminopeptidase B/Fe(2+) donor and activity modulator for cysteine desulfurase
RA	2,691,168:1	+T	5.1%	noncoding (173/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,707,320	A→T	13.6%	intergenic (‑196/+2)	lepA ← / ← rseC	back‑translocating elongation factor EF4, GTPase/SoxR iron‑sulfur cluster reduction factor component
RA	2,707,321	A→T	13.6%	intergenic (‑197/+1)	lepA ← / ← rseC	back‑translocating elongation factor EF4, GTPase/SoxR iron‑sulfur cluster reduction factor component
RA	2,716,030	T→G	13.3%	intergenic (+20/+36)	eamB → / ← grcA	cysteine and O‑acetylserine exporter/autonomous glycyl radical cofactor
RA	2,716,033	C→A	12.5%	intergenic (+23/+33)	eamB → / ← grcA	cysteine and O‑acetylserine exporter/autonomous glycyl radical cofactor
RA	2,719,845	G→A	5.5%	R208H (CGC→CAC)	yfiP →	DTW domain protein
RA	2,724,095	C→A	6.6%	intergenic (+13/‑33)	pssA → / → yfiM	phosphatidylserine synthase; CDP‑diacylglycerol‑serine O‑phosphatidyltransferase/putative lipoprotein
RA	2,724,097	T→A	6.3%	intergenic (+15/‑31)	pssA → / → yfiM	phosphatidylserine synthase; CDP‑diacylglycerol‑serine O‑phosphatidyltransferase/putative lipoprotein
RA	2,724,099	T→G	6.4%	intergenic (+17/‑29)	pssA → / → yfiM	phosphatidylserine synthase; CDP‑diacylglycerol‑serine O‑phosphatidyltransferase/putative lipoprotein
RA	2,761,620	T→G	14.6%	K641Q (AAG→CAG)	yfjK ←	radiation resistance protein; DEAD/H helicase‑like protein; CP4‑57 putative defective prophage
RA	2,761,623	C→A	14.7%	V640L (GTA→TTA)	yfjK ←	radiation resistance protein; DEAD/H helicase‑like protein; CP4‑57 putative defective prophage
RA	2,778,123	G→T	14.3%	intergenic (+341/+23)	ypjF → / ← ypjA	CP4‑57 prophage; toxin of the YpjF‑YfjZ toxin‑antitoxin system/adhesin‑like autotransporter
RA	2,778,124	A→C	14.3%	intergenic (+342/+22)	ypjF → / ← ypjA	CP4‑57 prophage; toxin of the YpjF‑YfjZ toxin‑antitoxin system/adhesin‑like autotransporter
RA	2,814,860	A→G	7.3%	noncoding (59/78 nt)	micA →	sRNA antisense regulator of ompA, lamB, ompX, and phoP; Hfq‑dependent
RA	2,814,861	C→T	7.2%	noncoding (60/78 nt)	micA →	sRNA antisense regulator of ompA, lamB, ompX, and phoP; Hfq‑dependent
RA	2,866,487	G→C	8.1%	intergenic (+22/+72)	ygbN → / ← rpoS	putative transporter/RNA polymerase, sigma S (sigma 38) factor
RA	2,866,488	G→C	8.1%	intergenic (+23/+71)	ygbN → / ← rpoS	putative transporter/RNA polymerase, sigma S (sigma 38) factor
RA	2,884,567	C→A	5.6%	A885S (GCA→TCA)	ygcB ←	Cascade complex anti‑viral R‑loop helicase‑annealase Cas3
RA	2,892,550	A→G	6.4%	T113A (ACC→GCC) ‡	queD →	6‑pyruvoyl tetrahydrobiopterin synthase (PTPS)
RA	2,892,551	C→G	6.4%	T113S (ACC→AGC) ‡	queD →	6‑pyruvoyl tetrahydrobiopterin synthase (PTPS)
RA	2,892,552	C→T	6.4%	T113T (ACC→ACT) ‡	queD →	6‑pyruvoyl tetrahydrobiopterin synthase (PTPS)
RA	2,936,359	T→A	6.7%	V259D (GTT→GAT) ‡	fucI →	L‑fucose isomerase
RA	2,936,360	T→A	6.7%	V259V (GTT→GTA) ‡	fucI →	L‑fucose isomerase
RA	2,951,448	C→A	7.0%	P338P (CCG→CCT)	recD ←	exonuclease V (RecBCD complex), alpha chain
RA	2,955,163	G→A	10.6%	Q281* (CAG→TAG)	recB ←	exonuclease V (RecBCD complex), beta subunit
RA	2,971,146	T→C	11.5%	intergenic (+13/‑125)	ygdQ → / → ygdR	UPF0053 family inner membrane protein/DUF903 family verified lipoprotein
RA	2,971,151	T→C	12.5%	intergenic (+18/‑120)	ygdQ → / → ygdR	UPF0053 family inner membrane protein/DUF903 family verified lipoprotein
RA	2,971,154	G→A	13.4%	intergenic (+21/‑117)	ygdQ → / → ygdR	UPF0053 family inner membrane protein/DUF903 family verified lipoprotein
RA	2,971,159	G→A	13.1%	intergenic (+26/‑112)	ygdQ → / → ygdR	UPF0053 family inner membrane protein/DUF903 family verified lipoprotein
RA	3,045,994	G→T	7.3%	intergenic (‑93/+174)	ygfF ← / ← gcvP	putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex
RA	3,045,999	T→G	7.2%	intergenic (‑98/+169)	ygfF ← / ← gcvP	putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex
RA	3,046,000	T→A	7.2%	intergenic (‑99/+168)	ygfF ← / ← gcvP	putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex
RA	3,046,001	C→A	6.9%	intergenic (‑100/+167)	ygfF ← / ← gcvP	putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex
RA	3,046,006	A→C	7.7%	intergenic (‑105/+162)	ygfF ← / ← gcvP	putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex
RA	3,057,140	A→G	8.1%	intergenic (+152/+38)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,057,145	G→C	9.2%	intergenic (+157/+33)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,057,150	C→T	9.2%	intergenic (+162/+28)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,059,703	A→T	5.5%	intergenic (‑2/‑50)	yqfE ← / → argP	pseudogene, LysR family/transcriptional regulator for arginine transport and DNA replication genes; replication initiation inhibitor
RA	3,059,704	A→T	5.5%	intergenic (‑3/‑49)	yqfE ← / → argP	pseudogene, LysR family/transcriptional regulator for arginine transport and DNA replication genes; replication initiation inhibitor
RA	3,061,817	G→C	10.3%	W323S (TGG→TCG) ‡	scpA →	methylmalonyl‑CoA mutase
RA	3,061,818	G→C	10.3%	W323C (TGG→TGC) ‡	scpA →	methylmalonyl‑CoA mutase
RA	3,113,377	A→T	14.0%	L34* (TTA→TAA) ‡	yghG ←	secretin (GspDbeta) OM localization lipoprotein pilotin
RA	3,113,378	A→T	14.0%	L34I (TTA→ATA) ‡	yghG ←	secretin (GspDbeta) OM localization lipoprotein pilotin
RA	3,124,929	G→C	10.4%	A177A (GCC→GCG)	glcF ←	glycolate oxidase 4Fe‑4S iron‑sulfur cluster subunit
RA	3,124,932	G→C	10.7%	C176W (TGC→TGG)	glcF ←	glycolate oxidase 4Fe‑4S iron‑sulfur cluster subunit
RA	3,134,556	G→T	6.1%	L142L (CTG→CTT)	yghT →	putative ATP‑binding protein
RA	3,140,351	C→T	6.7%	R150H (CGC→CAC) ‡	hybE ←	hydrogenase 2‑specific chaperone
RA	3,140,352	G→C	6.8%	R150G (CGC→GGC) ‡	hybE ←	hydrogenase 2‑specific chaperone
RA	3,140,353	A→G	6.5%	R149R (CGT→CGC)	hybE ←	hydrogenase 2‑specific chaperone
RA	3,156,590	C→A	13.7%	intergenic (+72/‑33)	yqhD → / → dkgA	aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A
RA	3,156,591	T→G	14.9%	intergenic (+73/‑32)	yqhD → / → dkgA	aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A
RA	3,171,852	C→T	11.9%	intergenic (+19/+27)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,171,857	A→T	12.2%	intergenic (+24/+22)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,171,858	A→T	12.2%	intergenic (+25/+21)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,171,863	A→G	11.7%	intergenic (+30/+16)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,180,050	C→T	9.8%	Q103* (CAG→TAG) ‡	ygiB →	DUF1190 family protein
RA	3,180,051	A→G	9.3%	Q103R (CAG→CGG) ‡	ygiB →	DUF1190 family protein
RA	3,180,497	Δ1 bp	11.3%	coding (77/1161 nt)	ygiC →	ATP‑Grasp family ATPase
RA	3,180,505	G→T	12.6%	E29* (GAG→TAG) ‡	ygiC →	ATP‑Grasp family ATPase
RA	3,180,506	A→C	12.8%	E29A (GAG→GCG) ‡	ygiC →	ATP‑Grasp family ATPase
RA	3,180,513:1	+A	10.3%	coding (93/1161 nt)	ygiC →	ATP‑Grasp family ATPase
RA	3,192,140	G→T	100%	intergenic (‑201/‑68)	glgS ← / → yqiJ	motility and biofilm regulator/DUF1449 family inner membrane protein
RA	3,202,003	G→C	5.8%	G38A (GGC→GCC)	cca →	fused tRNA nucleotidyl transferase/2'3'‑cyclic phosphodiesterase/2'nucleotidase and phosphatase
RA	3,208,205	G→A	6.5%	G61D (GGT→GAT)	ttdT →	L‑tartrate/succinate antiporte
RA	3,233,921	T→C	5.4%	Q75R (CAA→CGA) ‡	higA ←	antitoxinof the HigB‑HigA toxin‑antitoxin system
RA	3,233,922	G→A	5.3%	Q75* (CAA→TAA) ‡	higA ←	antitoxinof the HigB‑HigA toxin‑antitoxin system
RA	3,263,500	G→A	5.6%	P54L (CCG→CTG) ‡	tdcD ←	propionate kinase/acetate kinase C, anaerobic
RA	3,263,501	G→C	5.6%	P54A (CCG→GCG) ‡	tdcD ←	propionate kinase/acetate kinase C, anaerobic
RA	3,263,502	T→C	5.6%	A53A (GCA→GCG)	tdcD ←	propionate kinase/acetate kinase C, anaerobic
RA	3,276,886	C→A	10.7%	intergenic (+33/‑116)	garD → / → prlF	D‑galactarate dehydrogenase/antitoxin of the SohA(PrlF)‑YhaV toxin‑antitoxin system
RA	3,276,887	T→C	10.8%	intergenic (+34/‑115)	garD → / → prlF	D‑galactarate dehydrogenase/antitoxin of the SohA(PrlF)‑YhaV toxin‑antitoxin system
RA	3,276,890	G→A	10.8%	intergenic (+37/‑112)	garD → / → prlF	D‑galactarate dehydrogenase/antitoxin of the SohA(PrlF)‑YhaV toxin‑antitoxin system
RA	3,276,891	T→G	11.2%	intergenic (+38/‑111)	garD → / → prlF	D‑galactarate dehydrogenase/antitoxin of the SohA(PrlF)‑YhaV toxin‑antitoxin system
RA	3,309,004	C→T	5.2%	intergenic (‑80/+29)	nlpI ← / ← pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase
RA	3,309,009	C→T	5.2%	intergenic (‑85/+24)	nlpI ← / ← pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase
RA	3,309,012	A→G	6.3%	intergenic (‑88/+21)	nlpI ← / ← pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase
RA	3,324,952	A→G	9.7%	intergenic (‑41/+49)	folP ← / ← ftsH	7,8‑dihydropteroate synthase/protease, ATP‑dependent zinc‑metallo
RA	3,324,955	A→G	9.8%	intergenic (‑44/+46)	folP ← / ← ftsH	7,8‑dihydropteroate synthase/protease, ATP‑dependent zinc‑metallo
RA	3,324,956	C→T	9.7%	intergenic (‑45/+45)	folP ← / ← ftsH	7,8‑dihydropteroate synthase/protease, ATP‑dependent zinc‑metallo
RA	3,324,959	C→T	9.6%	intergenic (‑48/+42)	folP ← / ← ftsH	7,8‑dihydropteroate synthase/protease, ATP‑dependent zinc‑metallo
RA	3,357,941	C→A	7.9%	L1073M (CTG→ATG)	gltB →	glutamate synthase, large subunit
RA	3,403,593	C→T	7.1%	S37L (TCG→TTG)	acuI →	putative acryloyl‑CoA reductase
RA	3,407,293	T→A	9.9%	intergenic (+27/‑82)	accC → / → yhdT	acetyl‑CoA carboxylase, biotin carboxylase subunit/DUF997 family putative inner membrane protein
RA	3,407,294	T→A	9.9%	intergenic (+28/‑81)	accC → / → yhdT	acetyl‑CoA carboxylase, biotin carboxylase subunit/DUF997 family putative inner membrane protein
RA	3,407,295	T→A	9.9%	intergenic (+29/‑80)	accC → / → yhdT	acetyl‑CoA carboxylase, biotin carboxylase subunit/DUF997 family putative inner membrane protein
RA	3,422,555	G→A	6.2%	R40R (CGG→CGA)	yhdZ →	putative amino acid ABC transporter ATPase
RA	3,422,556	A→T	6.0%	I41F (ATC→TTC) ‡	yhdZ →	putative amino acid ABC transporter ATPase
RA	3,422,557	T→C	6.0%	I41T (ATC→ACC) ‡	yhdZ →	putative amino acid ABC transporter ATPase
RA	3,423,390	C→T	8.6%	intergenic (+196/+33)	yhdZ → / ← rrfF	putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon
RA	3,423,620	A→G	5.7%	noncoding (36/76 nt)	thrV ←	tRNA‑Thr
RA	3,439,588	G→C	9.9%	intergenic (‑79/+28)	yhdN ← / ← rplQ	DUF1992 family protein/50S ribosomal subunit protein L17
RA	3,439,589	G→C	9.7%	intergenic (‑80/+27)	yhdN ← / ← rplQ	DUF1992 family protein/50S ribosomal subunit protein L17
RA	3,471,357	C→T	7.3%	intergenic (‑28/+43)	tufA ← / ← fusA	translation elongation factor EF‑Tu 1/protein chain elongation factor EF‑G, GTP‑binding
RA	3,471,361	T→G	7.1%	intergenic (‑32/+39)	tufA ← / ← fusA	translation elongation factor EF‑Tu 1/protein chain elongation factor EF‑G, GTP‑binding
RA	3,471,362	C→A	7.0%	intergenic (‑33/+38)	tufA ← / ← fusA	translation elongation factor EF‑Tu 1/protein chain elongation factor EF‑G, GTP‑binding
RA	3,471,366	A→G	7.8%	intergenic (‑37/+34)	tufA ← / ← fusA	translation elongation factor EF‑Tu 1/protein chain elongation factor EF‑G, GTP‑binding
RA	3,476,585	G→A	10.9%	intergenic (‑145/+22)	yheO ← / ← fkpA	putative PAS domain‑containing DNA‑binding transcriptional regulator/FKBP‑type peptidyl‑prolyl cis‑trans isomerase (rotamase)
RA	3,476,586	T→C	10.9%	intergenic (‑146/+21)	yheO ← / ← fkpA	putative PAS domain‑containing DNA‑binding transcriptional regulator/FKBP‑type peptidyl‑prolyl cis‑trans isomerase (rotamase)
RA	3,488,983	C→A	6.2%	V400L (GTG→TTG)	argD ←	bifunctional acetylornithine aminotransferase and succinyldiaminopimelate aminotransferase
RA	3,488,989	G→T	6.6%	H398N (CAC→AAC)	argD ←	bifunctional acetylornithine aminotransferase and succinyldiaminopimelate aminotransferase
RA	3,495,860	G→A	6.0%	W617* (TGG→TAG)	nirB →	nitrite reductase, large subunit, NAD(P)H‑binding
RA	3,512,306	G→C	7.9%	I13M (ATC→ATG)	yhfZ ←	putative DNA‑binding transcriptional regulator
RA	3,512,309	G→C	8.3%	V12V (GTC→GTG)	yhfZ ←	putative DNA‑binding transcriptional regulator
RA	3,534,388	A→T	5.9%	Y524F (TAC→TTC)	pck →	phosphoenolpyruvate carboxykinase [ATP]
RA	3,560,455:1	+G	100%	intergenic (‑2/+1)	glpR ← / ← glpR	pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon
RA	3,563,539	T→C	8.3%	intergenic (+21/+248)	glpD → / ← yzgL	sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding/pseudogene, periplasmic solute binding protein homology
RA	3,566,210	A→T	6.0%	G124G (GGT→GGA) ‡	glgP ←	glycogen phosphorylase
RA	3,566,212	C→G	5.7%	G124R (GGT→CGT) ‡	glgP ←	glycogen phosphorylase
RA	3,566,215	T→A	5.8%	N123Y (AAC→TAC)	glgP ←	glycogen phosphorylase
RA	3,566,218	C→G	5.8%	G122R (GGT→CGT)	glgP ←	glycogen phosphorylase
RA	3,566,220	A→T	5.8%	L121H (CTC→CAC)	glgP ←	glycogen phosphorylase
RA	3,578,609	T→G	6.7%	I40L (ATT→CTT)	gntR ←	d‑gluconate inducible gluconate regulon transcriptional repressor
RA	3,578,610	C→A	6.7%	K39N (AAG→AAT)	gntR ←	d‑gluconate inducible gluconate regulon transcriptional repressor
RA	3,639,165	T→C	6.0%	intergenic (+24/+220)	pitA → / ← uspB	phosphate transporter, low‑affinity; tellurite importer/universal stress (ethanol tolerance) protein B
RA	3,639,172	G→A	5.1%	intergenic (+31/+213)	pitA → / ← uspB	phosphate transporter, low‑affinity; tellurite importer/universal stress (ethanol tolerance) protein B
RA	3,639,338	T→C	5.1%	intergenic (+197/+47)	pitA → / ← uspB	phosphate transporter, low‑affinity; tellurite importer/universal stress (ethanol tolerance) protein B
RA	3,639,343	T→A	5.1%	intergenic (+202/+42)	pitA → / ← uspB	phosphate transporter, low‑affinity; tellurite importer/universal stress (ethanol tolerance) protein B
RA	3,639,344	T→A	5.1%	intergenic (+203/+41)	pitA → / ← uspB	phosphate transporter, low‑affinity; tellurite importer/universal stress (ethanol tolerance) protein B
RA	3,639,349	G→A	5.1%	intergenic (+208/+36)	pitA → / ← uspB	phosphate transporter, low‑affinity; tellurite importer/universal stress (ethanol tolerance) protein B
RA	3,657,599	T→A	11.2%	intergenic (+32/+387)	hdeD → / ← arrS	acid‑resistance membrane protein/antisense sRNA ArrS, function unknown
RA	3,657,601	G→C	10.9%	intergenic (+34/+385)	hdeD → / ← arrS	acid‑resistance membrane protein/antisense sRNA ArrS, function unknown
RA	3,692,439	G→A	7.0%	Q57* (CAG→TAG)	bcsB ←	regulator of cellulose synthase, cyclic di‑GMP binding
RA	3,722,300	G→T	6.8%	intergenic (+195/+28)	sokA → / ← glyS	pseudogene, sRNA antisense regulator blocking mokA/hokA translation/glycine tRNA synthetase, beta subunit
RA	3,722,301	A→C	6.9%	intergenic (+196/+27)	sokA → / ← glyS	pseudogene, sRNA antisense regulator blocking mokA/hokA translation/glycine tRNA synthetase, beta subunit
RA	3,774,207	C→T	8.4%	intergenic (+13/‑217)	mtlA → / → mtlD	mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent
RA	3,774,214	C→T	8.4%	intergenic (+20/‑210)	mtlA → / → mtlD	mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent
RA	3,774,215	A→G	8.5%	intergenic (+21/‑209)	mtlA → / → mtlD	mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent
RA	3,774,222	A→G	8.5%	intergenic (+28/‑202)	mtlA → / → mtlD	mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent
RA	3,781,051	C→G	6.7%	intergenic (+34/‑164)	lldD → / → trmL	L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent
RA	3,790,300	A→T	8.3%	intergenic (‑219/+20)	waaH ← / ← tdh	LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding
RA	3,790,303	A→T	8.4%	intergenic (‑222/+17)	waaH ← / ← tdh	LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding
RA	3,798,234	A→T	8.8%	intergenic (+27/+5)	waaL → / ← waaU	O‑antigen ligase/lipopolysaccharide core biosynthesis
RA	3,798,235	A→T	8.8%	intergenic (+28/+4)	waaL → / ← waaU	O‑antigen ligase/lipopolysaccharide core biosynthesis
RA	3,815,816	C→G	5.9%	intergenic (‑48/+18)	pyrE ← / ← rph	orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
RA	3,815,819	C→G	6.0%	intergenic (‑51/+15)	pyrE ← / ← rph	orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
RA	3,817,948	G→T	5.0%	E63D (GAG→GAT)	dinD →	DNA damage‑inducible protein
RA	3,817,949	A→C	5.0%	I64L (ATC→CTC)	dinD →	DNA damage‑inducible protein
RA	3,832,797	T→G	6.8%	N581H (AAC→CAC)	yicI ←	putative alpha‑glucosidase
RA	3,832,800	C→A	7.3%	A580S (GCG→TCG)	yicI ←	putative alpha‑glucosidase
RA	3,853,602	C→T	11.5%	A17V (GCA→GTA) ‡	tisB →	toxic membrane persister formation peptide, LexA‑regulated
RA	3,853,603	A→G	11.6%	A17A (GCA→GCG) ‡	tisB →	toxic membrane persister formation peptide, LexA‑regulated
RA	3,866,468	G→A	6.8%	intergenic (‑195/+1)	yidE ← / ← ibpB	putative transporter/heat shock chaperone
RA	3,866,469	T→C	6.9%	*143* (TAA→TAG)	ibpB ←	heat shock chaperone
RA	3,891,502	C→G	8.7%	intergenic (+19/‑113)	tnaB → / → mdtL	tryptophan transporter of low affinity/multidrug efflux system protein
RA	3,891,504	T→A	7.9%	intergenic (+21/‑111)	tnaB → / → mdtL	tryptophan transporter of low affinity/multidrug efflux system protein
RA	3,891,506	C→G	7.8%	intergenic (+23/‑109)	tnaB → / → mdtL	tryptophan transporter of low affinity/multidrug efflux system protein
RA	3,908,512	A→C	7.8%	intergenic (‑146/+37)	pstB ← / ← pstA	phosphate ABC transporter ATPase/phosphate ABC transporter permease
RA	3,912,781	A→G	6.3%	I296I (ATT→ATC)	glmS ←	L‑glutamine:D‑fructose‑6‑phosphate aminotransferase
RA	3,923,720	T→C	6.9%	intergenic (‑40/+24)	rsmG ← / ← mnmG	16S rRNA m(7)G527 methyltransferase, SAM‑dependent; glucose‑inhibited cell‑division protein/5‑methylaminomethyl‑2‑thiouridine modification at tRNA U34
RA	3,938,255	T→A	9.5%	L10Q (CTG→CAG)	rbsR →	transcriptional repressor of ribose metabolism
RA	3,953,432	C→T	6.8%	intergenic (+19/‑46)	ilvE → / → ilvD	branched‑chain amino acid aminotransferase/dihydroxyacid dehydratase
RA	3,953,433	A→G	6.8%	intergenic (+20/‑45)	ilvE → / → ilvD	branched‑chain amino acid aminotransferase/dihydroxyacid dehydratase
RA	3,953,436	C→T	6.8%	intergenic (+23/‑42)	ilvE → / → ilvD	branched‑chain amino acid aminotransferase/dihydroxyacid dehydratase
RA	3,953,437	A→G	6.8%	intergenic (+24/‑41)	ilvE → / → ilvD	branched‑chain amino acid aminotransferase/dihydroxyacid dehydratase
RA	3,959,924	A→T	5.8%	intergenic (‑111/+88)	ppiC ← / ← yifN	peptidyl‑prolyl cis‑trans isomerase C (rotamase C)/PemK toxin family pseudogene
RA	3,959,925	A→T	5.8%	intergenic (‑112/+87)	ppiC ← / ← yifN	peptidyl‑prolyl cis‑trans isomerase C (rotamase C)/PemK toxin family pseudogene
RA	3,959,926	A→T	5.8%	intergenic (‑113/+86)	ppiC ← / ← yifN	peptidyl‑prolyl cis‑trans isomerase C (rotamase C)/PemK toxin family pseudogene
RA	3,963,415	A→C	8.1%	L272R (CTG→CGG) ‡	gpp ←	guanosine pentaphosphatase/exopolyphosphatase
RA	3,963,416	G→T	8.3%	L272M (CTG→ATG) ‡	gpp ←	guanosine pentaphosphatase/exopolyphosphatase
RA	3,967,704	G→A	10.9%	intergenic (+28/‑212)	rho → / → wecA	transcription termination factor/UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
RA	3,967,705	T→A	11.5%	intergenic (+29/‑211)	rho → / → wecA	transcription termination factor/UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
RA	3,967,706	T→A	11.1%	intergenic (+30/‑210)	rho → / → wecA	transcription termination factor/UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
RA	3,967,707	T→C	11.1%	intergenic (+31/‑209)	rho → / → wecA	transcription termination factor/UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
RA	3,980,726	G→A	5.9%	intergenic (+30/‑161)	wecG → / → yifK	UDP‑N‑acetyl‑D‑mannosaminuronic acid transferase/putative APC family amino acid transporter
RA	3,980,727	T→C	5.5%	intergenic (+31/‑160)	wecG → / → yifK	UDP‑N‑acetyl‑D‑mannosaminuronic acid transferase/putative APC family amino acid transporter
RA	4,017,216:1	+A	11.5%	intergenic (+24/‑117)	udp → / → rmuC	uridine phosphorylase/DNA recombination protein
RA	4,017,222	Δ1 bp	11.4%	intergenic (+30/‑111)	udp → / → rmuC	uridine phosphorylase/DNA recombination protein
RA	4,047,222	A→G	5.5%	D86G (GAC→GGC)	polA →	5' to 3' DNA polymerase and 3' to 5'/5' to 3' exonuclease
RA	4,051,259	G→T	11.1%	noncoding (224/245 nt)	csrC →	CsrC sRNA sequesters CsrA, a carbon flux regulator
RA	4,051,262	A→C	11.3%	noncoding (227/245 nt)	csrC →	CsrC sRNA sequesters CsrA, a carbon flux regulator
RA	4,060,261	G→T	7.4%	intergenic (+31/‑186)	typA → / → yihL	GTP‑binding protein/putative DNA‑binding transcriptional regulator
RA	4,060,264	A→C	7.5%	intergenic (+34/‑183)	typA → / → yihL	GTP‑binding protein/putative DNA‑binding transcriptional regulator
RA	4,062,371	A→T	7.1%	N42I (AAT→ATT)	yihN →	MFS transporter family protein
RA	4,082,696	G→C	7.8%	Q22E (CAG→GAG)	fdoH ←	formate dehydrogenase‑O, Fe‑S subunit
RA	4,093,463	A→G	12.0%	S270S (AGT→AGC)	rhaD ←	rhamnulose‑1‑phosphate aldolase
RA	4,117,027	C→A	100%	A66S (GCG→TCG)	glpK ←	glycerol kinase
RA	4,118,531	A→G	5.7%	E6G (GAA→GGA)	zapB →	FtsZ stabilizer, septal ring assembly factor, cell division stimulator
RA	4,130,005	G→A	12.4%	L57L (TTG→TTA)	metL →	Bifunctional aspartokinase/homoserine dehydrogenase 2
RA	4,130,008	T→C	11.1%	I58I (ATT→ATC)	metL →	Bifunctional aspartokinase/homoserine dehydrogenase 2
RA	4,177,171	T→A	11.5%	intergenic (+43/‑187)	tufB → / → secE	translation elongation factor EF‑Tu 2/preprotein translocase membrane subunit
RA	4,177,172	T→A	10.3%	intergenic (+44/‑186)	tufB → / → secE	translation elongation factor EF‑Tu 2/preprotein translocase membrane subunit
RA	4,229,433:1	+G	6.0%	intergenic (+71/+20)	yjbB → / ← pepE	putative Na+/Pi‑cotransporter/peptidase E, alpha‑aspartyl dipeptidase
RA	4,229,438	Δ1 bp	6.2%	intergenic (+76/+15)	yjbB → / ← pepE	putative Na+/Pi‑cotransporter/peptidase E, alpha‑aspartyl dipeptidase
RA	4,262,250	G→C	5.6%	G194G (GGG→GGC)	dusA →	tRNA‑dihydrouridine synthase A
RA	4,262,255	G→C	5.9%	S196T (AGC→ACC)	dusA →	tRNA‑dihydrouridine synthase A
RA	4,265,670	T→G	10.0%	F453V (TTT→GTT)	dnaB →	replicative DNA helicase
RA	4,265,675	C→A	7.9%	N454K (AAC→AAA)	dnaB →	replicative DNA helicase
RA	4,285,866	Δ1 bp	9.8%	coding (1506/1959 nt)	acs ←	acetyl‑CoA synthetase
RA	4,285,870:1	+G	9.7%	coding (1502/1959 nt)	acs ←	acetyl‑CoA synthetase
RA	4,296,060	C→T	22.1%	intergenic (+266/+376)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,296,380:1	+CG	100%	intergenic (+586/+56)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,312,074	C→T	7.2%	intergenic (‑32/+27)	alsB ← / ← alsR	D‑allose ABC transporter periplasmic binding protein/d‑allose‑inducible als operon transcriptional repressor; autorepressor; repressor of rpiR
RA	4,312,080	G→C	7.1%	intergenic (‑38/+21)	alsB ← / ← alsR	D‑allose ABC transporter periplasmic binding protein/d‑allose‑inducible als operon transcriptional repressor; autorepressor; repressor of rpiR
RA	4,312,083	G→C	7.1%	intergenic (‑41/+18)	alsB ← / ← alsR	D‑allose ABC transporter periplasmic binding protein/d‑allose‑inducible als operon transcriptional repressor; autorepressor; repressor of rpiR
RA	4,312,089	A→G	7.0%	intergenic (‑47/+12)	alsB ← / ← alsR	D‑allose ABC transporter periplasmic binding protein/d‑allose‑inducible als operon transcriptional repressor; autorepressor; repressor of rpiR
RA	4,314,227	A→T	5.6%	intergenic (+30/+117)	yjdP → / ← phnP	putative periplasmic protein/5‑phospho‑alpha‑D‑ribosyl 1,2‑cyclic phosphate phosphodiesterase
RA	4,314,233	A→T	5.4%	intergenic (+36/+111)	yjdP → / ← phnP	putative periplasmic protein/5‑phospho‑alpha‑D‑ribosyl 1,2‑cyclic phosphate phosphodiesterase
RA	4,323,321	T→C	10.8%	intergenic (‑91/+15)	phnE ← / ← phnD	defective phosphonate ABC transporter permease;transport; Transport of small molecules: Anions; membrane channel protein component of Pn transporter; membrane component of ABC superfamily/phosphonate ABC transporter periplasmic binding protein
RA	4,362,528	G→A	13.6%	intergenic (‑175/+23)	yjdQ ← / ← pheU	pseudogene, P4‑like integrase remnant/tRNA‑Phe
RA	4,362,529	T→C	13.7%	intergenic (‑176/+22)	yjdQ ← / ← pheU	pseudogene, P4‑like integrase remnant/tRNA‑Phe
RA	4,366,854	T→G	8.1%	intergenic (‑81/+37)	dcuA ← / ← aspA	C4‑dicarboxylate antiporter/aspartate ammonia‑lyase
RA	4,366,855	C→A	8.3%	intergenic (‑82/+36)	dcuA ← / ← aspA	C4‑dicarboxylate antiporter/aspartate ammonia‑lyase
RA	4,376,280	G→A	7.9%	intergenic (+15/‑37)	efp → / → ecnA	polyproline‑specific translation elongation factor EF‑P/entericidin A membrane lipoprotein, antidote entericidin B
RA	4,376,291	T→C	7.8%	intergenic (+26/‑26)	efp → / → ecnA	polyproline‑specific translation elongation factor EF‑P/entericidin A membrane lipoprotein, antidote entericidin B
RA	4,381,389	G→T	5.9%	G310G (GGC→GGA)	frdA ←	anaerobic fumarate reductase catalytic and NAD/flavoprotein subunit
RA	4,381,396	G→C	6.2%	P308R (CCG→CGG)	frdA ←	anaerobic fumarate reductase catalytic and NAD/flavoprotein subunit
RA	4,381,403	A→C	6.2%	S306A (TCC→GCC)	frdA ←	anaerobic fumarate reductase catalytic and NAD/flavoprotein subunit
RA	4,395,454	T→C	12.2%	C463C (TGT→TGC)	nnr →	bifunctional NAD(P)H‑hydrate repair enzyme; C‑terminal domain ADP‑dependent (S)‑NAD(P)H‑hydrate dehydratase and N‑terminal domain NAD(P)H‑hydrate epimerase
RA	4,395,455	G→A	12.2%	A464T (GCA→ACA)	nnr →	bifunctional NAD(P)H‑hydrate repair enzyme; C‑terminal domain ADP‑dependent (S)‑NAD(P)H‑hydrate dehydratase and N‑terminal domain NAD(P)H‑hydrate epimerase
RA	4,426,592	T→A	13.5%	intergenic (+35/+36)	rplI → / ← yjfZ	50S ribosomal subunit protein L9/uncharacterized protein
RA	4,472,434	G→A	8.2%	R34* (CGA→TGA)	pyrL ←	pyrBI operon leader peptide
RA	4,472,437	T→C	9.1%	N33D (AAT→GAT)	pyrL ←	pyrBI operon leader peptide
RA	4,484,494	T→C	6.1%	V486V (GTA→GTG)	pepA ←	multifunctional aminopeptidase A: a cyteinylglycinase, transcription regulator and site‑specific recombination factor
RA	4,484,509	G→A	6.1%	A481A (GCC→GCT)	pepA ←	multifunctional aminopeptidase A: a cyteinylglycinase, transcription regulator and site‑specific recombination factor
RA	4,496,511	A→G	8.9%	intergenic (+22/‑164)	leuX → / → intB	tRNA‑Leu/pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase
RA	4,496,512	C→T	8.9%	intergenic (+23/‑163)	leuX → / → intB	tRNA‑Leu/pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase
RA	4,501,002	G→A	5.2%	intergenic (‑211/‑258)	yjgX ← / → yjgZ	pseudogene fragment/uncharacterized protein
RA	4,511,300	A→T	6.6%	M53K (ATG→AAG)	fecE ←	ferric citrate ABC transporter ATPase
RA	4,511,303	A→T	7.0%	L52* (TTA→TAA)	fecE ←	ferric citrate ABC transporter ATPase
RA	4,511,306	A→T	7.0%	L51H (CTT→CAT)	fecE ←	ferric citrate ABC transporter ATPase
RA	4,512,350:1	+G	19.6%	coding (65/957 nt)	fecD ←	ferric citrate ABC transporter permease
RA	4,520,500	Δ1 bp	20.0%	intergenic (‑176/+171)	yjhU ← / ← yjhF	putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter
RA	4,520,504:1	+T	19.1%	intergenic (‑180/+167)	yjhU ← / ← yjhF	putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter
RA	4,523,438	G→C	9.8%	R219R (CGC→CGG)	yjhG ←	putative dehydratase
RA	4,523,445	T→G	8.2%	D217A (GAC→GCC) ‡	yjhG ←	putative dehydratase
RA	4,523,446	C→G	7.4%	D217H (GAC→CAC) ‡	yjhG ←	putative dehydratase
RA	4,537,639	T→G	6.9%	intergenic (‑45/+20)	nanS ← / ← nanM	9‑O‑acetyl N‑acetylneuraminic acid esterase/N‑acetylneuraminic acid mutarotase
RA	4,537,640	T→G	6.9%	intergenic (‑46/+19)	nanS ← / ← nanM	9‑O‑acetyl N‑acetylneuraminic acid esterase/N‑acetylneuraminic acid mutarotase
RA	4,537,643	C→A	6.9%	intergenic (‑49/+16)	nanS ← / ← nanM	9‑O‑acetyl N‑acetylneuraminic acid esterase/N‑acetylneuraminic acid mutarotase
RA	4,537,644	C→A	6.9%	intergenic (‑50/+15)	nanS ← / ← nanM	9‑O‑acetyl N‑acetylneuraminic acid esterase/N‑acetylneuraminic acid mutarotase
RA	4,551,422	T→A	8.5%	intergenic (‑126/‑214)	gntP ← / → uxuA	fructuronate transporter/mannonate hydrolase
RA	4,567,982	A→G	5.7%	S180P (TCA→CCA)	mdtM ←	multidrug efflux system protein
RA	4,608,604	C→G	6.2%	I140M (ATC→ATG)	rimI →	ribosomal‑protein‑S18‑alanine N‑acetyltransferase
RA	4,608,607	C→G	6.0%	I141M (ATC→ATG)	rimI →	ribosomal‑protein‑S18‑alanine N‑acetyltransferase
RA	4,621,622	G→A	7.6%	intergenic (+20/‑147)	deoD → / → yjjJ	purine nucleoside phosphorylase 1; nicotinamide 1‑beta‑D‑riboside phosphorylase/putative protein kinase
RA	4,636,212	T→A	8.9%	L69* (TTA→TAA)	creB →	response regulator in two‑component regulatory system with CreC

Unassigned missing coverage evidence
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	3423762–3424234	3424545–3424238	5–784	25 [23]	[22] 24	[rrfD]–[rrlD]	[rrfD],[rrlD]

Unassigned new junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 26597	50 (0.770)	4 (0.060)	4/250	NT	7.5%	coding (321/951 nt)	ispH	4‑hydroxy‑3‑methylbut‑2‑enyl diphosphate reductase, 4Fe‑4S protein
	?	NC_000913	= 26612	50 (0.800)					coding (336/951 nt)	ispH	4‑hydroxy‑3‑methylbut‑2‑enyl diphosphate reductase, 4Fe‑4S protein
*	?	NC_000913	= 47830	58 (0.890)	5 (0.080)	5/250	NT	7.8%	coding (62/1863 nt)	kefC	potassium:proton antiporter
	?	NC_000913	= 47836	62 (0.990)					coding (68/1863 nt)	kefC	potassium:proton antiporter
*	?	NC_000913	= 167087	47 (0.720)	3 (0.050)	3/252	NT	5.2%	coding (2358/2535 nt)	mrcB	fused glycosyl transferase and transpeptidase
	?	NC_000913	= 167110	64 (1.020)					coding (2381/2535 nt)	mrcB	fused glycosyl transferase and transpeptidase
*	?	NC_000913	201795 =	65 (1.000)	4 (0.060)	4/248	NT	6.0%	coding (825/1026 nt)	lpxD	UDP‑3‑O‑(3‑hydroxymyristoyl)‑glucosamine N‑acyltransferase
	?	NC_000913	201811 =	64 (1.030)					coding (841/1026 nt)	lpxD	UDP‑3‑O‑(3‑hydroxymyristoyl)‑glucosamine N‑acyltransferase
*	?	NC_000913	209596 =	69 (1.060)	4 (0.070)	4/244	NT	6.1%	intergenic (+16/‑83)	accA/ldcC	acetyl‑CoA carboxylase, carboxytransferase, alpha subunit/lysine decarboxylase 2, constitutive
	?	NC_000913	209624 =	58 (0.950)					intergenic (+44/‑55)	accA/ldcC	acetyl‑CoA carboxylase, carboxytransferase, alpha subunit/lysine decarboxylase 2, constitutive
*	?	NC_000913	= 219448	46 (0.710)	4 (0.070)	4/244	NT	8.2%	coding (147/708 nt)	tsaA	tRNA‑Thr(GGU) m(6)t(6)A37 methyltransferase, SAM‑dependent
	?	NC_000913	= 219458	47 (0.770)					coding (137/708 nt)	tsaA	tRNA‑Thr(GGU) m(6)t(6)A37 methyltransferase, SAM‑dependent
*	?	NC_000913	= 284691	59 (0.910)	4 (0.060)	3/252	NT	6.8%	coding (1491/1968 nt)	yagF	CP4‑6 prophage; dehydratase family protein
	?	NC_000913	= 284723	53 (0.840)					coding (1523/1968 nt)	yagF	CP4‑6 prophage; dehydratase family protein
*	?	NC_000913	321549 =	74 (1.140)	7 (0.110)	6/248	NT	9.6%	intergenic (+468/‑59)	rclR/ykgE	reactive chlorine species (RCS)‑specific activator of the rcl genes/cysteine‑rich LutA family protein; putative electron transport chain YkgEFG component
	?	NC_000913	321566 =	61 (0.990)					intergenic (+485/‑42)	rclR/ykgE	reactive chlorine species (RCS)‑specific activator of the rcl genes/cysteine‑rich LutA family protein; putative electron transport chain YkgEFG component
*	?	NC_000913	349791 =	44 (0.680)	4 (0.070)	4/246	NT	7.6%	noncoding (187/365 nt)	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences
	?	NC_000913	349916 =	56 (0.910)					noncoding (312/365 nt)	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences
*	?	NC_000913	618054 =	48 (0.740)	3 (0.050)	3/234	NT	7.0%	intergenic (+16/‑200)	entF/fepE	enterobactin synthase multienzyme complex component, ATP‑dependent/regulator of length of O‑antigen component of lipopolysaccharide chains
	?	NC_000913	618087 =	37 (0.630)					intergenic (+49/‑167)	entF/fepE	enterobactin synthase multienzyme complex component, ATP‑dependent/regulator of length of O‑antigen component of lipopolysaccharide chains
*	?	NC_000913	= 626953	61 (0.940)	6 (0.100)	4/250	NT	8.9%	coding (884/1611 nt)	entE	2,3‑dihydroxybenzoate‑AMP ligase component of enterobactin synthase multienzyme complex
	?	NC_000913	= 627002	64 (1.030)					coding (933/1611 nt)	entE	2,3‑dihydroxybenzoate‑AMP ligase component of enterobactin synthase multienzyme complex
*	?	NC_000913	648718 =	75 (1.160)	4 (0.060)	4/252	NT	5.4%	coding (854/1533 nt)	citF	citrate lyase, citrate‑ACP transferase (alpha) subunit
	?	NC_000913	648741 =	68 (1.080)					coding (831/1533 nt)	citF	citrate lyase, citrate‑ACP transferase (alpha) subunit
*	?	NC_000913	= 823993	35 (0.540)	3 (0.050)	3/248	NT	8.0%	coding (505/762 nt)	ybhP	endo/exonuclease/phosphatase family protein
	?	NC_000913	= 824001	36 (0.580)					coding (497/762 nt)	ybhP	endo/exonuclease/phosphatase family protein
*	?	NC_000913	836798 =	41 (0.630)	4 (0.060)	4/248	NT	9.5%	coding (448/1086 nt)	ybiC	putative dehydrogenase
	?	NC_000913	836822 =	37 (0.600)					coding (472/1086 nt)	ybiC	putative dehydrogenase
*	?	NC_000913	= 854789	53 (0.820)	3 (0.050)	3/240	NT	5.4%	intergenic (+24/+35)	ybiR/ldtB	putative transporter/L,D‑transpeptidase linking Lpp to murein
	?	NC_000913	= 854796	57 (0.950)					intergenic (+31/+28)	ybiR/ldtB	putative transporter/L,D‑transpeptidase linking Lpp to murein
*	?	NC_000913	900800 =	51 (0.790)	4 (0.070)	3/246	NT	8.5%	noncoding (52/87 nt)	REP83 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP83 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913	900832 =	38 (0.620)					noncoding (84/87 nt)	REP83 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP83 (repetitive extragenic palindromic) element; contains 2 REP sequences
*	?	NC_000913	902198 =	69 (1.060)	5 (0.080)	4/250	NT	7.1%	coding (53/717 nt)	artQ	arginine ABC transporter permease
	?	NC_000913	902230 =	64 (1.030)					coding (21/717 nt)	artQ	arginine ABC transporter permease
*	?	NC_000913	904786 =	47 (0.720)	5 (0.080)	5/258	NT	10.1%	coding (194/324 nt)	ybjQ	UPF0145 family protein
	?	NC_000913	904817 =	42 (0.650)					coding (225/324 nt)	ybjQ	UPF0145 family protein
*	?	NC_000913	= 944911	61 (0.940)	5 (0.080)	4/244	NT	8.0%	intergenic (+15/+20)	dmsC/ycaC	dimethyl sulfoxide reductase, anaerobic, subunit C/putative isochorismatase family hydrolase
	?	NC_000913	= 944917	58 (0.950)					intergenic (+21/+14)	dmsC/ycaC	dimethyl sulfoxide reductase, anaerobic, subunit C/putative isochorismatase family hydrolase
*	?	NC_000913	= 1050545	NA (NA)	3 (0.050)	3/256	NT	5.2%	noncoding (768/768 nt)	IS1	repeat region
	?	NC_000913	1293070 =	55 (0.850)					intergenic (‑148/‑457)	hns/tdk	global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase
*	?	NC_000913	= 1056964	45 (0.690)	4 (0.070)	3/246	NT	8.6%	coding (704/1029 nt)	torT	periplasmic sensory protein associated with the TorRS two‑component regulatory system
	?	NC_000913	= 1056974	42 (0.680)					coding (714/1029 nt)	torT	periplasmic sensory protein associated with the TorRS two‑component regulatory system
*	?	NC_000913	= 1082137	46 (0.710)	3 (0.050)	3/244	NT	6.0%	pseudogene (678/726 nt)	efeU	ferrous iron permease (pseudogene)
	?	NC_000913	= 1082144	51 (0.840)					pseudogene (685/726 nt)	efeU	ferrous iron permease (pseudogene)
*	?	NC_000913	1100121 =	66 (1.020)	5 (0.080)	5/252	NT	7.2%	coding (482/555 nt)	ycdY	redox enzyme maturation protein (REMP) chaperone for YcdX
	?	NC_000913	1100158 =	65 (1.030)					coding (519/555 nt)	ycdY	redox enzyme maturation protein (REMP) chaperone for YcdX
*	?	NC_000913	1113435 =	NA (NA)	5 (0.080)	3/246	NT	NA	noncoding (19/98 nt)	RIP97 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP97 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	NC_000913	2945903 =	NA (NA)					noncoding (8/97 nt)	RIP206 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP206 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
*	?	NC_000913	1129605 =	58 (0.890)	3 (0.050)	3/244	NT	5.5%	coding (226/417 nt)	flgN	export chaperone for FlgK and FlgL
	?	NC_000913	1129627 =	49 (0.810)					coding (204/417 nt)	flgN	export chaperone for FlgK and FlgL
*	?	NC_000913	1183476 =	59 (0.910)	3 (0.050)	3/252	NT	5.1%	coding (145/795 nt)	potC	spermidine/putrescine ABC transporter permease
	?	NC_000913	1183501 =	54 (0.860)					coding (120/795 nt)	potC	spermidine/putrescine ABC transporter permease
*	?	NC_000913	1207790 =	22 (0.340)	42 (0.740)	36/228	NT	67.1%	coding (290/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	1209619 =	22 (0.390)					pseudogene (1/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	= 1207805	24 (0.370)	45 (0.790)	36/228	NT	67.7%	coding (305/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	= 1209602	22 (0.390)					pseudogene (18/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	= 1243874	60 (0.930)	5 (0.080)	5/250	NT	8.2%	coding (654/735 nt)	ycgR	flagellar velocity braking protein, c‑di‑GMP‑regulated
	?	NC_000913	= 1243902	55 (0.880)					coding (626/735 nt)	ycgR	flagellar velocity braking protein, c‑di‑GMP‑regulated
*	?	NC_000913	= 1299498	0 (0.000)	64 (1.020)	56/252	NT	100%	intergenic (+253/‑1684)	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
	?	NC_000913	1300698 =	0 (0.000)					intergenic (+1453/‑484)	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
*	?	NC_000913	1316953 =	49 (0.760)	3 (0.050)	3/248	NT	5.9%	coding (270/807 nt)	trpA	tryptophan synthase, alpha subunit
	?	NC_000913	1317052 =	49 (0.790)					coding (171/807 nt)	trpA	tryptophan synthase, alpha subunit
*	?	NC_000913	= 1390821	58 (0.890)	3 (0.050)	3/248	NT	5.1%	pseudogene (42/138 nt)	ymjC	pseudogene
	?	NC_000913	= 1390830	56 (0.910)					pseudogene (33/138 nt)	ymjC	pseudogene
*	?	NC_000913	= 1612087	49 (0.760)	4 (0.070)	4/244	NT	7.8%	coding (239/360 nt)	yneG	DUF4186 family protein
	?	NC_000913	= 1612092	49 (0.810)					coding (234/360 nt)	yneG	DUF4186 family protein
*	?	NC_000913	= 1672798	36 (0.560)	4 (0.070)	4/240	NT	10.0%	intergenic (+17/+22)	ydgD/mdtI	putative peptidase/multidrug efflux system transporter
	?	NC_000913	= 1672804	39 (0.650)					intergenic (+23/+16)	ydgD/mdtI	putative peptidase/multidrug efflux system transporter
*	?	NC_000913	1713808 =	59 (0.910)	5 (0.080)	5/246	NT	8.3%	coding (1040/1503 nt)	dtpA	dipeptide and tripeptide permease A
	?	NC_000913	1713838 =	55 (0.900)					coding (1070/1503 nt)	dtpA	dipeptide and tripeptide permease A
*	?	NC_000913	1735255 =	58 (0.890)	7 (0.120)	7/238	NT	12.1%	intergenic (+5/‑123)	mepH/sodB	murein DD‑endopeptidase, space‑maker hydrolase/superoxide dismutase, Fe
	?	NC_000913	1735283 =	49 (0.830)					intergenic (+33/‑95)	mepH/sodB	murein DD‑endopeptidase, space‑maker hydrolase/superoxide dismutase, Fe
*	?	NC_000913	1754899 =	31 (0.480)	4 (0.070)	4/242	NT	13.4%	intergenic (‑422/+33)	ydhY/ydhZ	putative 4Fe‑4S ferridoxin‑type protein; FNR, Nar, NarP‑regulated protein; putative subunit of YdhYVWXUT oxidoreductase complex/uncharacterized protein
	?	NC_000913	1754928 =	23 (0.380)					intergenic (‑451/+4)	ydhY/ydhZ	putative 4Fe‑4S ferridoxin‑type protein; FNR, Nar, NarP‑regulated protein; putative subunit of YdhYVWXUT oxidoreductase complex/uncharacterized protein
*	?	NC_000913	= 1836891	43 (0.660)	3 (0.050)	3/252	NT	6.5%	coding (819/1167 nt)	ynjB	putative ABC transporter periplasmic binding protein
	?	NC_000913	= 1836916	44 (0.700)					coding (844/1167 nt)	ynjB	putative ABC transporter periplasmic binding protein
*	?	NC_000913	= 1907164	49 (0.760)	3 (0.050)	3/242	NT	5.8%	intergenic (‑104/+62)	rlmA/cspC	23S rRNA m(1)G745 methyltransferase, SAM‑dependent/stress protein, member of the CspA‑family
	?	NC_000913	= 1907171	52 (0.860)					intergenic (‑111/+55)	rlmA/cspC	23S rRNA m(1)G745 methyltransferase, SAM‑dependent/stress protein, member of the CspA‑family
*	?	NC_000913	= 1907965	53 (0.820)	3 (0.050)	3/246	NT	5.4%	intergenic (‑374/+296)	yobF/yebO	DUF2527 family heat‑induced protein/putative inner membrane protein
	?	NC_000913	= 1907969	55 (0.900)					intergenic (‑378/+292)	yobF/yebO	DUF2527 family heat‑induced protein/putative inner membrane protein
*	?	NC_000913	1920012 =	60 (0.930)	3 (0.050)	3/246	NT	5.1%	coding (2503/2634 nt)	yebT	MCE domain protein
	?	NC_000913	1920036 =	56 (0.910)					coding (2527/2634 nt)	yebT	MCE domain protein
*	?	NC_000913	1958447 =	42 (0.650)	3 (0.050)	3/242	NT	7.2%	intergenic (‑315/+73)	torY/cutC	TMAO reductase III (TorYZ), cytochrome c‑type subunit/copper homeostasis protein
	?	NC_000913	1958474 =	38 (0.630)					intergenic (‑342/+46)	torY/cutC	TMAO reductase III (TorYZ), cytochrome c‑type subunit/copper homeostasis protein
*	?	NC_000913	2028961 =	55 (0.850)	4 (0.060)	3/250	NT	7.3%	coding (406/918 nt)	yedI	DUF808 family inner membrane protein
	?	NC_000913	2029010 =	49 (0.790)					coding (357/918 nt)	yedI	DUF808 family inner membrane protein
*	?	NC_000913	2191623 =	37 (0.570)	3 (0.050)	3/248	NT	8.5%	coding (23/720 nt)	yehC	putative periplasmic pilin chaperone
	?	NC_000913	2191644 =	29 (0.470)					coding (2/720 nt)	yehC	putative periplasmic pilin chaperone
*	?	NC_000913	= 2194023	45 (0.690)	5 (0.080)	4/252	NT	10.0%	coding (146/1110 nt)	mrp	antiporter inner membrane protein
	?	NC_000913	= 2194049	46 (0.730)					coding (120/1110 nt)	mrp	antiporter inner membrane protein
*	?	NC_000913	2230452 =	51 (0.790)	4 (0.070)	4/238	NT	8.7%	intergenic (‑67/‑172)	dusC/yohJ	tRNA‑dihydrouridine synthase C/UPF0299 family inner membrane protein
	?	NC_000913	2230482 =	37 (0.620)					intergenic (‑97/‑142)	dusC/yohJ	tRNA‑dihydrouridine synthase C/UPF0299 family inner membrane protein
*	?	NC_000913	2414828 =	58 (0.890)	5 (0.080)	5/248	NT	8.2%	coding (82/2145 nt)	pta	phosphate acetyltransferase
	?	NC_000913	2414844 =	57 (0.920)					coding (98/2145 nt)	pta	phosphate acetyltransferase
*	?	NC_000913	= 2511358	39 (0.600)	2 (0.030)	3/246	NT	5.0%	noncoding (7/88 nt)	REP172 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP172 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913	= 2511376	39 (0.640)					noncoding (25/88 nt)	REP172 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP172 (repetitive extragenic palindromic) element; contains 2 REP sequences
*	?	NC_000913	2518010 =	67 (1.030)	7 (0.110)	6/250	NT	10.3%	intergenic (‑178/+31)	yfeA/alaX	putative diguanylate cyclase/tRNA‑Ala
	?	NC_000913	2518034 =	57 (0.910)					intergenic (‑202/+7)	yfeA/alaX	putative diguanylate cyclase/tRNA‑Ala
*	?	NC_000913	= 2530994	41 (0.630)	3 (0.050)	3/248	NT	6.7%	coding (240/987 nt)	zipA	FtsZ stabilizer
	?	NC_000913	= 2531012	44 (0.710)					coding (222/987 nt)	zipA	FtsZ stabilizer
*	?	NC_000913	2539608 =	NA (NA)	4 (0.060)	4/248	NT	NA	noncoding (2/36 nt)	REP175 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP175 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913	2539638 =	NA (NA)					noncoding (32/36 nt)	REP175 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP175 (repetitive extragenic palindromic) element; contains 1 REP sequences
*	?	NC_000913	2655796 =	65 (1.000)	5 (0.080)	5/246	NT	8.0%	coding (563/1284 nt)	pepB	aminopeptidase B
	?	NC_000913	2655819 =	54 (0.880)					coding (540/1284 nt)	pepB	aminopeptidase B
*	?	NC_000913	2680032 =	58 (0.890)	3 (0.050)	3/248	NT	5.2%	coding (2714/3282 nt)	yphG	DUF4380 domain‑containing TPR repeat protein
	?	NC_000913	2680053 =	53 (0.860)					coding (2693/3282 nt)	yphG	DUF4380 domain‑containing TPR repeat protein
*	?	NC_000913	= 2700568	27 (0.420)	3 (0.050)	3/222	NT	11.8%	noncoding (49/77 nt)	ohsC	sRNA antisense regulator of shoB toxin
	?	NC_000913	= 2700581	22 (0.400)					noncoding (62/77 nt)	ohsC	sRNA antisense regulator of shoB toxin
*	?	NC_000913	2727891 =	NA (NA)	28 (0.450)	13/248	NT	NA	noncoding (1294/2904 nt)	rrlG	23S ribosomal RNA of rrnG operon
	?	NC_000913	2727910 =	NA (NA)					noncoding (1275/2904 nt)	rrlG	23S ribosomal RNA of rrnG operon
*	?	NC_000913	2729443 =	34 (0.520)	6 (0.100)	3/240	NT	18.1%	noncoding (2/76 nt)	gltW	tRNA‑Glu
	?	NC_000913	2729485 =	23 (0.380)					intergenic (‑41/+131)	gltW/rrsG	tRNA‑Glu/16S ribosomal RNA of rrnG operon
*	?	NC_000913	= 2878782	52 (0.800)	6 (0.100)	4/244	NT	9.9%	coding (72/285 nt)	ygbF	CRISPR adaptation ssRNA endonuclease
	?	NC_000913	= 2878815	61 (1.000)					coding (39/285 nt)	ygbF	CRISPR adaptation ssRNA endonuclease
*	?	NC_000913	2884559 =	61 (0.940)	7 (0.110)	5/250	NT	10.6%	coding (2661/2667 nt)	ygcB	Cascade complex anti‑viral R‑loop helicase‑annealase Cas3
	?	NC_000913	2884597 =	59 (0.950)					coding (2623/2667 nt)	ygcB	Cascade complex anti‑viral R‑loop helicase‑annealase Cas3
*	?	NC_000913	2904081 =	41 (0.630)	5 (0.080)	5/246	NT	11.4%	intergenic (+707/+666)	ygcE/queE	putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis
	?	NC_000913	2904099 =	39 (0.640)					intergenic (+725/+648)	ygcE/queE	putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis
*	?	NC_000913	= 2977189	64 (0.990)	5 (0.080)	5/246	NT	7.7%	coding (591/1032 nt)	galR	galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor
	?	NC_000913	= 2977199	60 (0.980)					coding (601/1032 nt)	galR	galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor
*	?	NC_000913	3045989 =	59 (0.910)	5 (0.080)	7/250	NT	8.4%	intergenic (‑88/+179)	ygfF/gcvP	putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex
	?	NC_000913	3046012 =	53 (0.850)					intergenic (‑111/+156)	ygfF/gcvP	putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex
*	?	NC_000913	= 3072885	41 (0.630)	3 (0.050)	3/252	NT	7.4%	coding (807/1020 nt)	epd	D‑erythrose 4‑phosphate dehydrogenase
	?	NC_000913	= 3072906	35 (0.560)					coding (786/1020 nt)	epd	D‑erythrose 4‑phosphate dehydrogenase
*	?	NC_000913	= 3085963	71 (1.090)	4 (0.070)	3/244	NT	5.5%	coding (89/132 nt)	yqgB	uncharacterized protein
	?	NC_000913	= 3085970	72 (1.180)					coding (82/132 nt)	yqgB	uncharacterized protein
*	?	NC_000913	3094492 =	55 (0.850)	3 (0.050)	3/256	NT	5.4%	coding (589/981 nt)	yggR	putative PilT family AAA+ ATPase
	?	NC_000913	3094537 =	52 (0.810)					coding (544/981 nt)	yggR	putative PilT family AAA+ ATPase
*	?	NC_000913	3124692 =	44 (0.680)	3 (0.050)	3/252	NT	6.2%	coding (768/1224 nt)	glcF	glycolate oxidase 4Fe‑4S iron‑sulfur cluster subunit
	?	NC_000913	3124729 =	48 (0.760)					coding (731/1224 nt)	glcF	glycolate oxidase 4Fe‑4S iron‑sulfur cluster subunit
*	?	NC_000913	3201053 =	81 (1.250)	4 (0.070)	4/242	NT	5.0%	intergenic (‑88/‑154)	ygiF/ygiM	inorganic triphosphatase/SH3 domain protein
	?	NC_000913	3201079 =	76 (1.260)					intergenic (‑114/‑128)	ygiF/ygiM	inorganic triphosphatase/SH3 domain protein
*	?	NC_000913	= 3219874	39 (0.600)	3 (0.050)	3/248	NT	6.7%	coding (381/1380 nt)	patA	putrescine:2‑oxoglutaric acid aminotransferase, PLP‑dependent
	?	NC_000913	= 3219902	47 (0.760)					coding (409/1380 nt)	patA	putrescine:2‑oxoglutaric acid aminotransferase, PLP‑dependent
*	?	NC_000913	3220880 =	NA (NA)	3 (0.050)	3/236	NT	NA	noncoding (1/31 nt)	REP230 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP230 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913	3220911 =	NA (NA)					intergenic (+38/+4)	patA/ygjH	putrescine:2‑oxoglutaric acid aminotransferase, PLP‑dependent/putative tRNA binding protein; putative tRNA corner chaperone
*	?	NC_000913	3248531 =	50 (0.770)	4 (0.070)	3/244	NT	7.9%	coding (93/384 nt)	mzrA	modulator of EnvZ/OmpR regulon
	?	NC_000913	3248557 =	46 (0.760)					coding (119/384 nt)	mzrA	modulator of EnvZ/OmpR regulon
*	?	NC_000913	= 3434258	63 (0.970)	6 (0.090)	6/260	NT	8.2%	coding (45/948 nt)	fmt	10‑formyltetrahydrofolate:L‑methionyl‑tRNA(fMet) N‑formyltransferase
	?	NC_000913	= 3434283	72 (1.110)					coding (70/948 nt)	fmt	10‑formyltetrahydrofolate:L‑methionyl‑tRNA(fMet) N‑formyltransferase
*	?	NC_000913	3499656 =	44 (0.680)	4 (0.070)	4/244	NT	9.2%	intergenic (+41/‑254)	yhfL/frlA	small lipoprotein/putative fructoselysine transporter
	?	NC_000913	3499682 =	38 (0.620)					intergenic (+67/‑228)	yhfL/frlA	small lipoprotein/putative fructoselysine transporter
*	?	NC_000913	= 3593805	57 (0.880)	3 (0.050)	3/248	NT	5.1%	coding (402/768 nt)	livG	branched‑chain amino acid ABC transporter ATPase
	?	NC_000913	= 3593830	57 (0.920)					coding (377/768 nt)	livG	branched‑chain amino acid ABC transporter ATPase
*	?	NC_000913	3629290 =	43 (0.660)	3 (0.050)	3/244	NT	7.3%	coding (249/2736 nt)	rbbA	ribosome‑associated ATPase: ATP‑binding protein/ATP‑binding membrane protein
	?	NC_000913	3629322 =	36 (0.590)					coding (217/2736 nt)	rbbA	ribosome‑associated ATPase: ATP‑binding protein/ATP‑binding membrane protein
*	?	NC_000913	3673203 =	53 (0.820)	3 (0.050)	3/252	NT	5.5%	coding (790/900 nt)	yhjC	LysR family putative transcriptional regulator
	?	NC_000913	3673258 =	51 (0.810)					coding (845/900 nt)	yhjC	LysR family putative transcriptional regulator
*	?	NC_000913	= 3700415	57 (0.880)	3 (0.050)	3/244	NT	5.2%	intergenic (+214/‑148)	rdlD/yhjV	sRNA antisense regulator affects LdrD translation; proposed addiction module in LDR‑D repeat, with toxic peptide LdrD/putative transporter
	?	NC_000913	= 3700421	57 (0.940)					intergenic (+220/‑142)	rdlD/yhjV	sRNA antisense regulator affects LdrD translation; proposed addiction module in LDR‑D repeat, with toxic peptide LdrD/putative transporter
*	?	NC_000913	3721045 =	83 (1.280)	259 (4.020)	136/258	NT	77.5%	noncoding (413/1443 nt)	IS150	repeat region
	?	NC_000913	= 3839774	68 (1.060)					coding (220/819 nt)	nlpA	cytoplasmic membrane lipoprotein‑28
*	?	NC_000913	= 3858205	61 (0.940)	4 (0.070)	4/234	NT	5.9%	coding (200/1494 nt)	yidJ	sulfatase/phosphatase superfamily protein
	?	NC_000913	= 3858228	72 (1.230)					coding (177/1494 nt)	yidJ	sulfatase/phosphatase superfamily protein
*	?	NC_000913	= 3884522	57 (0.880)	5 (0.080)	5/244	NT	8.6%	coding (30/360 nt)	rnpA	protein C5 component of RNase P
	?	NC_000913	= 3884529	53 (0.870)					coding (37/360 nt)	rnpA	protein C5 component of RNase P
*	?	NC_000913	= 3948434	61 (0.940)	4 (0.070)	4/242	NT	6.8%	intergenic (+10/+15)	yifE/yifB	UPF0438 family protein/magnesium chelatase family protein and putative transcriptional regulator
	?	NC_000913	= 3948439	53 (0.880)					intergenic (+15/+10)	yifE/yifB	UPF0438 family protein/magnesium chelatase family protein and putative transcriptional regulator
*	?	NC_000913	= 3962703	NA (NA)	3 (0.050)	3/248	NT	NA	noncoding (4/36 nt)	REP286 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP286 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913	= 3962735	NA (NA)					noncoding (36/36 nt)	REP286 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP286 (repetitive extragenic palindromic) element; contains 1 REP sequences
*	?	NC_000913	3998038 =	53 (0.820)	3 (0.050)	3/246	NT	5.8%	coding (56/2163 nt)	uvrD	DNA‑dependent ATPase I and helicase II
	?	NC_000913	3998077 =	47 (0.770)					coding (95/2163 nt)	uvrD	DNA‑dependent ATPase I and helicase II
*	?	NC_000913	4195804 =	63 (0.970)	7 (0.110)	6/246	NT	10.6%	coding (296/1896 nt)	thiC	phosphomethylpyrimidine synthase
	?	NC_000913	4195826 =	59 (0.960)					coding (274/1896 nt)	thiC	phosphomethylpyrimidine synthase
*	?	NC_000913	4200582 =	76 (1.170)	4 (0.070)	3/244	NT	5.3%	coding (17/696 nt)	yjaH	DUF1481 family putative lipoprotein
	?	NC_000913	4200602 =	71 (1.170)					coding (37/696 nt)	yjaH	DUF1481 family putative lipoprotein
*	?	NC_000913	= 4200814	78 (1.200)	4 (0.060)	4/248	NT	5.1%	coding (249/696 nt)	yjaH	DUF1481 family putative lipoprotein
	?	NC_000913	= 4200821	75 (1.210)					coding (256/696 nt)	yjaH	DUF1481 family putative lipoprotein
*	?	NC_000913	4218457 =	NA (NA)	4 (0.060)	4/256	NT	5.6%	noncoding (22/132 nt)	REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences	REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences
	?	NC_000913	4218497 =	68 (1.070)					noncoding (62/132 nt)	REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences	REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences
*	?	NC_000913	4266888 =	NA (NA)	4 (0.070)	4/246	NT	NA	noncoding (1/97 nt)	RIP318 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP318 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	NC_000913	4266918 =	NA (NA)					noncoding (31/97 nt)	RIP318 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP318 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
*	?	NC_000913	4341707 =	62 (0.960)	4 (0.060)	4/250	NT	6.1%	intergenic (‑79/‑204)	melR/melA	melibiose operon transcriptional regulator; autoregulator/alpha‑galactosidase, NAD(P)‑binding
	?	NC_000913	4341730 =	64 (1.030)					intergenic (‑102/‑181)	melR/melA	melibiose operon transcriptional regulator; autoregulator/alpha‑galactosidase, NAD(P)‑binding
*	?	NC_000913	= 4376625	68 (1.050)	4 (0.060)	4/250	NT	5.6%	coding (73/147 nt)	ecnB	entericidin B membrane lipoprotein
	?	NC_000913	= 4376635	70 (1.120)					coding (83/147 nt)	ecnB	entericidin B membrane lipoprotein
*	?	NC_000913	= 4404332	80 (1.230)	5 (0.080)	5/254	NT	6.2%	intergenic (+28/‑54)	hflC/yjeT	HflB protease modulator specific for phage lambda cII repressor/DUF2065 family protein
	?	NC_000913	= 4404361	73 (1.150)					intergenic (+57/‑25)	hflC/yjeT	HflB protease modulator specific for phage lambda cII repressor/DUF2065 family protein
*	?	NC_000913	4441750 =	52 (0.800)	3 (0.050)	3/248	NT	5.8%	coding (427/639 nt)	msrA	methionine sulfoxide reductase A
	?	NC_000913	4441769 =	48 (0.780)					coding (408/639 nt)	msrA	methionine sulfoxide reductase A
*	?	NC_000913	4528083 =	73 (1.130)	7 (0.120)	7/240	NT	9.6%	intergenic (+17/+28)	ryjB/sgcQ	novel sRNA, function unknown/putative nucleoside triphosphatase
	?	NC_000913	4528108 =	64 (1.070)					intergenic (+42/+3)	ryjB/sgcQ	novel sRNA, function unknown/putative nucleoside triphosphatase
*	?	NC_000913	= 4601579	56 (0.860)	4 (0.070)	4/244	NT	6.7%	intergenic (‑62/+45)	dnaT/yjjB	DNA biosynthesis protein (primosomal protein I)/DUF3815 family inner membrane protein
	?	NC_000913	= 4601599	58 (0.950)					intergenic (‑82/+25)	dnaT/yjjB	DNA biosynthesis protein (primosomal protein I)/DUF3815 family inner membrane protein
*	?	NC_000913	= 4633116	43 (0.660)	4 (0.060)	3/248	NT	8.9%	noncoding (26/140 nt)	REP355 (repetitive extragenic palindromic) element; contains 3 REP sequences	REP355 (repetitive extragenic palindromic) element; contains 3 REP sequences
	?	NC_000913	= 4633138	41 (0.660)					noncoding (48/140 nt)	REP355 (repetitive extragenic palindromic) element; contains 3 REP sequences	REP355 (repetitive extragenic palindromic) element; contains 3 REP sequences