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	9,907	A→C	7.9%	intergenic (+14/+21)	mog → / ← satP	molybdochelatase incorporating molybdenum into molybdopterin/succinate‑acetate transporter
RA	9,908	G→T	7.7%	intergenic (+15/+20)	mog → / ← satP	molybdochelatase incorporating molybdenum into molybdopterin/succinate‑acetate transporter
RA	15,318	G→A	5.3%	intergenic (+20/‑127)	dnaJ → / → insL1	chaperone Hsp40, DnaK co‑chaperone/IS186 transposase
RA	15,319	T→C	5.3%	intergenic (+21/‑126)	dnaJ → / → insL1	chaperone Hsp40, DnaK co‑chaperone/IS186 transposase
RA	53,376	G→A	11.6%	P14L (CCC→CTC)	pdxA ←	4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent
RA	53,379	T→C	10.1%	E13G (GAG→GGG)	pdxA ←	4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent
RA	63,070	G→A	6.6%	D65D (GAC→GAT) ‡	rapA ←	RNA polymerase remodeling/recycling factor ATPase; RNA polymerase‑associated, ATP‑dependent RNA translocase
RA	63,072	C→G	6.5%	D65H (GAC→CAC) ‡	rapA ←	RNA polymerase remodeling/recycling factor ATPase; RNA polymerase‑associated, ATP‑dependent RNA translocase
RA	63,074	T→C	6.3%	H64R (CAT→CGT)	rapA ←	RNA polymerase remodeling/recycling factor ATPase; RNA polymerase‑associated, ATP‑dependent RNA translocase
RA	72,198	A→G	7.0%	intergenic (+83/+31)	yabI → / ← thiQ	DedA family inner membrane protein/thiamine/thiamine pyrophosphate ABC transporter ATPase
RA	72,199	A→C	6.8%	intergenic (+84/+30)	yabI → / ← thiQ	DedA family inner membrane protein/thiamine/thiamine pyrophosphate ABC transporter ATPase
RA	72,205	T→G	8.7%	intergenic (+90/+24)	yabI → / ← thiQ	DedA family inner membrane protein/thiamine/thiamine pyrophosphate ABC transporter ATPase
RA	72,206	C→A	8.7%	intergenic (+91/+23)	yabI → / ← thiQ	DedA family inner membrane protein/thiamine/thiamine pyrophosphate ABC transporter ATPase
RA	72,212	G→T	6.6%	intergenic (+97/+17)	yabI → / ← thiQ	DedA family inner membrane protein/thiamine/thiamine pyrophosphate ABC transporter ATPase
RA	72,213	C→T	6.9%	intergenic (+98/+16)	yabI → / ← thiQ	DedA family inner membrane protein/thiamine/thiamine pyrophosphate ABC transporter ATPase
RA	83,587	A→C	26.9%	intergenic (‑58/+35)	leuA ← / ← leuL	2‑isopropylmalate synthase/leu operon leader peptide
RA	83,590	G→T	26.0%	intergenic (‑61/+32)	leuA ← / ← leuL	2‑isopropylmalate synthase/leu operon leader peptide
RA	87,881	A→G	8.1%	intergenic (+33/‑147)	ilvH → / → cra	acetolactate synthase 3, small subunit, valine‑sensitive/transcriptional repressor‑activator for carbon metabolism
RA	87,884	T→A	7.1%	intergenic (+36/‑144)	ilvH → / → cra	acetolactate synthase 3, small subunit, valine‑sensitive/transcriptional repressor‑activator for carbon metabolism
RA	87,887	C→T	7.4%	intergenic (+39/‑141)	ilvH → / → cra	acetolactate synthase 3, small subunit, valine‑sensitive/transcriptional repressor‑activator for carbon metabolism
RA	95,070	G→A	5.3%	V141I (GTA→ATA) ‡	murF →	UDP‑N‑acetylmuramoyl‑tripeptide:D‑alanyl‑D‑ alanine ligase
RA	95,071	T→C	5.3%	V141A (GTA→GCA) ‡	murF →	UDP‑N‑acetylmuramoyl‑tripeptide:D‑alanyl‑D‑ alanine ligase
RA	106,831	T→A	6.2%	I92N (ATT→AAT)	lpxC →	UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase
RA	140,499	T→C	6.5%	S243G (AGC→GGC)	gcd ←	glucose dehydrogenase
RA	140,500	G→A	6.6%	A242A (GCC→GCT)	gcd ←	glucose dehydrogenase
RA	151,519	A→C	23.3%	I27M (ATT→ATG)	yadK ←	putative fimbrial‑like adhesin protein
RA	151,522	G→T	22.1%	A26A (GCC→GCA)	yadK ←	putative fimbrial‑like adhesin protein
RA	169,748	T→A	6.3%	intergenic (+21/‑30)	fhuA → / → fhuC	ferrichrome outer membrane transporter/iron(3+)‑hydroxamate import ABC transporter ATPase
RA	169,749	T→A	6.3%	intergenic (+22/‑29)	fhuA → / → fhuC	ferrichrome outer membrane transporter/iron(3+)‑hydroxamate import ABC transporter ATPase
RA	176,977	A→G	10.2%	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	9.2%	intergenic (+25/+22)	erpA → / ← yadS	iron‑sulfur cluster insertion protein/UPF0126 family inner membrane protein
RA	191,720	G→A	8.2%	intergenic (+12/‑135)	tsf → / → pyrH	translation elongation factor EF‑Ts/uridylate kinase
RA	191,739	T→C	8.3%	intergenic (+31/‑116)	tsf → / → pyrH	translation elongation factor EF‑Ts/uridylate kinase
RA	208,552	T→A	9.6%	L1143I (TTA→ATA)	dnaE →	DNA polymerase III alpha subunit
RA	217,030	C→T	5.5%	intergenic (‑27/+27)	yaeF ← / ← proS	putative lipoprotein/prolyl‑tRNA synthetase
RA	217,037	A→T	7.0%	intergenic (‑34/+20)	yaeF ← / ← proS	putative lipoprotein/prolyl‑tRNA synthetase
RA	217,044	A→G	7.1%	intergenic (‑41/+13)	yaeF ← / ← proS	putative lipoprotein/prolyl‑tRNA synthetase
RA	256,449	T→C	6.6%	intergenic (+14/‑78)	gpt → / → frsA	xanthine phosphoribosyltransferase; xanthine‑guanine phosphoribosyltransferase/fermentation‑respiration switch protein; PTS Enzyme IIA(Glc)‑binding protein; pNP‑butyrate esterase activity
RA	256,454	C→G	6.7%	intergenic (+19/‑73)	gpt → / → frsA	xanthine phosphoribosyltransferase; xanthine‑guanine phosphoribosyltransferase/fermentation‑respiration switch protein; PTS Enzyme IIA(Glc)‑binding protein; pNP‑butyrate esterase activity
RA	256,459	G→A	6.1%	intergenic (+24/‑68)	gpt → / → frsA	xanthine phosphoribosyltransferase; xanthine‑guanine phosphoribosyltransferase/fermentation‑respiration switch protein; PTS Enzyme IIA(Glc)‑binding protein; pNP‑butyrate esterase activity
MC JC	257,908	Δ776 bp	100%		[crl]	[crl]
RA	260,537	G→C	5.9%	S50S (TCG→TCC)	proB →	gamma‑glutamate kinase
RA	285,882	T→G	9.4%	I163S (ATC→AGC)	yagG →	CP4‑6 prophage; putative sugar transporter
RA	285,887	C→A	9.4%	L165M (CTG→ATG)	yagG →	CP4‑6 prophage; putative sugar transporter
RA	289,256	G→C	6.4%	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	6.5%	intergenic (‑95/+44)	yagI ← / ← argF	CP4‑6 prophage; putative DNA‑binding transcriptional regulator/ornithine carbamoyltransferase 2, chain F; CP4‑6 prophage
RA	314,255	T→C	14.1%	intergenic (‑450/‑102)	ykgP ← / → eaeH	pseudogene, oxidoreductase family/pseudogene, attaching and effacing protein homology;factor; Not classified
RA	314,258	G→A	12.9%	intergenic (‑453/‑99)	ykgP ← / → eaeH	pseudogene, oxidoreductase family/pseudogene, attaching and effacing protein homology;factor; Not classified
RA	371,999	T→A	5.5%	I254N (ATT→AAT)	mhpC →	2‑hydroxy‑6‑ketonona‑2,4‑dienedioic acid hydrolase
RA	374,682	C→T	13.2%	P272L (CCG→CTG) ‡	mhpE →	4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I
RA	374,683	G→C	13.4%	P272P (CCG→CCC) ‡	mhpE →	4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I
RA	374,688	G→C	12.7%	R274P (CGA→CCA) ‡	mhpE →	4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I
RA	374,689	A→G	12.5%	R274R (CGA→CGG) ‡	mhpE →	4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I
RA	383,897	C→T	8.0%	M13I (ATG→ATA) ‡	yaiP ←	putative family 2 glycosyltransferase
RA	383,898	A→G	7.1%	M13T (ATG→ACG) ‡	yaiP ←	putative family 2 glycosyltransferase
RA	385,724	T→A	5.8%	W165R (TGG→AGG)	tauA →	taurine ABC transporter periplasmic binding protein
RA	403,178	T→C	8.6%	intergenic (+16/‑103)	phoA → / → psiF	bacterial alkaline phosphatase/PsiF family protein
RA	403,182	T→A	8.3%	intergenic (+20/‑99)	phoA → / → psiF	bacterial alkaline phosphatase/PsiF family protein
RA	403,183	T→A	8.3%	intergenic (+21/‑98)	phoA → / → psiF	bacterial alkaline phosphatase/PsiF family protein
RA	403,187	G→A	7.4%	intergenic (+25/‑94)	phoA → / → psiF	bacterial alkaline phosphatase/PsiF family protein
RA	422,537	T→G	5.6%	L7R (CTG→CGG)	malZ →	maltodextrin glucosidase
RA	422,540	C→A	5.6%	P8Q (CCG→CAG)	malZ →	maltodextrin glucosidase
RA	448,965	G→A	7.3%	H559H (CAC→CAT) ‡	cyoB ←	cytochrome o ubiquinol oxidase subunit I
RA	448,966	T→C	7.2%	H559R (CAC→CGC) ‡	cyoB ←	cytochrome o ubiquinol oxidase subunit I
RA	454,853	T→C	6.0%	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	6.2%	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	464,354	C→A	9.6%	intergenic (+46/‑48)	ybaV → / → fadM	putative competence‑suppressing periplasmic helix‑hairpin‑helix DNA‑binding protein/long‑chain acyl‑CoA thioesterase III
RA	464,356	A→T	9.4%	intergenic (+48/‑46)	ybaV → / → fadM	putative competence‑suppressing periplasmic helix‑hairpin‑helix DNA‑binding protein/long‑chain acyl‑CoA thioesterase III
RA	464,358	T→G	9.2%	intergenic (+50/‑44)	ybaV → / → fadM	putative competence‑suppressing periplasmic helix‑hairpin‑helix DNA‑binding protein/long‑chain acyl‑CoA thioesterase III
RA	475,971	C→G	11.9%	intergenic (+20/+11)	ybaY → / ← ybaZ	outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL
RA	475,972	C→G	11.9%	intergenic (+21/+10)	ybaY → / ← ybaZ	outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL
RA	481,225	T→G	29.0%	intergenic (‑517/+29)	tomB ← / ← acrB	Hha toxicity attenuator; conjugation‑related protein/multidrug efflux system protein
RA	481,228	C→A	31.0%	intergenic (‑520/+26)	tomB ← / ← acrB	Hha toxicity attenuator; conjugation‑related protein/multidrug efflux system protein
RA	507,268	G→T	6.7%	noncoding (65/84 nt)	chiX →	sRNA antisense regulator of OM chitoporin ChiP(YbfM), Hfq‑dependent
RA	507,271	A→C	6.7%	noncoding (68/84 nt)	chiX →	sRNA antisense regulator of OM chitoporin ChiP(YbfM), Hfq‑dependent
RA	513,502	C→T	5.1%	S309S (AGC→AGT)	ybaT →	putative amino acid transporter
RA	543,091	G→C	8.8%	intergenic (+58/+170)	glxK → / ← allE	glycerate kinase II/S‑ureidoglycine aminohydrolase
RA	543,094	G→C	8.3%	intergenic (+61/+167)	glxK → / ← allE	glycerate kinase II/S‑ureidoglycine aminohydrolase
RA	549,681	T→G	5.8%	S19A (TCC→GCC) ‡	ylbF →	putative anaerobic allantoin catabolic oxamate carbamoyltransferase; DUF2877 family protein
RA	549,682	C→A	5.7%	S19Y (TCC→TAC) ‡	ylbF →	putative anaerobic allantoin catabolic oxamate carbamoyltransferase; DUF2877 family protein
RA	553,885	G→A	7.0%	T19I (ACC→ATC)	lpxH ←	UDP‑2,3‑diacylglucosamine pyrophosphohydrolase
RA	553,887	G→C	7.9%	I18M (ATC→ATG) ‡	lpxH ←	UDP‑2,3‑diacylglucosamine pyrophosphohydrolase
RA	553,889	T→C	8.1%	I18V (ATC→GTC) ‡	lpxH ←	UDP‑2,3‑diacylglucosamine pyrophosphohydrolase
RA	569,160	G→T	7.6%	D87Y (GAC→TAC) ‡	ybcK →	DLP12 prophage; putative recombinase
RA	569,161	A→C	7.8%	D87A (GAC→GCC) ‡	ybcK →	DLP12 prophage; putative recombinase
RA	594,946	C→A	5.6%	Q166H (CAG→CAT) ‡	cusR ←	response regulator in two‑component regulatory system with CusS
RA	594,948	G→C	5.5%	Q166E (CAG→GAG) ‡	cusR ←	response regulator in two‑component regulatory system with CusS
RA	594,950	T→G	6.1%	H165P (CAT→CCT)	cusR ←	response regulator in two‑component regulatory system with CusS
RA	603,391	C→G	6.5%	intergenic (+56/+25)	pheP → / ← ybdG	phenylalanine transporter/mechanosensitive channel protein, miniconductance
RA	603,393	T→A	6.1%	intergenic (+58/+23)	pheP → / ← ybdG	phenylalanine transporter/mechanosensitive channel protein, miniconductance
RA	603,395	C→G	5.9%	intergenic (+60/+21)	pheP → / ← ybdG	phenylalanine transporter/mechanosensitive channel protein, miniconductance
RA	622,455	G→C	6.8%	W52C (TGG→TGC)	entS →	enterobactin exporter, iron‑regulated
RA	650,529	G→A	8.3%	R85R (CGC→CGT)	citD ←	citrate lyase, acyl carrier (gamma) subunit
RA	650,532	T→C	8.1%	A84A (GCA→GCG)	citD ←	citrate lyase, acyl carrier (gamma) subunit
RA	657,531	T→G	12.5%	intergenic (+30/+24)	cspE → / ← flc	constitutive cold shock family transcription antitermination protein; negative regulator of cspA transcription; RNA melting protein; ssDNA‑binding protein/fluoride efflux channel, dual topology membrane protein
RA	657,533	A→T	12.3%	intergenic (+32/+22)	cspE → / ← flc	constitutive cold shock family transcription antitermination protein; negative regulator of cspA transcription; RNA melting protein; ssDNA‑binding protein/fluoride efflux channel, dual topology membrane protein
RA	657,535	C→A	12.0%	intergenic (+34/+20)	cspE → / ← flc	constitutive cold shock family transcription antitermination protein; negative regulator of cspA transcription; RNA melting protein; ssDNA‑binding protein/fluoride efflux channel, dual topology membrane protein
RA	659,204	C→T	5.7%	intergenic (+54/+47)	tatE → / ← lipA	TatABCE protein translocation system subunit/lipoate synthase
RA	659,205	A→T	6.0%	intergenic (+55/+46)	tatE → / ← lipA	TatABCE protein translocation system subunit/lipoate synthase
RA	659,206	A→T	6.0%	intergenic (+56/+45)	tatE → / ← lipA	TatABCE protein translocation system subunit/lipoate synthase
RA	659,207	A→G	5.9%	intergenic (+57/+44)	tatE → / ← lipA	TatABCE protein translocation system subunit/lipoate synthase
RA	665,094	G→C	8.6%	P33A (CCT→GCT)	rlpA ←	septal ring protein, suppressor of prc, minor lipoprotein
RA	672,110	G→A	8.9%	T26I (ACC→ATC)	lptE ←	LPS assembly OM complex LptDE, lipoprotein component
RA	672,113	T→C	9.2%	D25G (GAT→GGT)	lptE ←	LPS assembly OM complex LptDE, lipoprotein component
RA	710,170	C→T	12.0%	intergenic (+54/+30)	chiQ → / ← fur	chitosugar‑induced verified lipoprotein/ferric iron uptake regulon transcriptional repressor; autorepressor
RA	710,173	A→G	12.0%	intergenic (+57/+27)	chiQ → / ← fur	chitosugar‑induced verified lipoprotein/ferric iron uptake regulon transcriptional repressor; autorepressor
RA	752,065	G→C	6.3%	D35E (GAC→GAG) ‡	ybgQ ←	putative outer membrane protein
RA	752,066	T→G	6.4%	D35A (GAC→GCC) ‡	ybgQ ←	putative outer membrane protein
RA	752,067	C→A	6.2%	D35Y (GAC→TAC) ‡	ybgQ ←	putative outer membrane protein
RA	752,068	G→C	6.2%	R34R (CGC→CGG)	ybgQ ←	putative outer membrane protein
RA	756,643	T→A	6.2%	I246N (ATT→AAT)	sdhA →	succinate dehydrogenase, flavoprotein subunit
RA	758,459	G→A	6.3%	intergenic (+54/‑247)	sdhB → / → sucA	succinate dehydrogenase, FeS subunit/2‑oxoglutarate decarboxylase, thiamine triphosphate‑binding
RA	758,460	C→A	6.3%	intergenic (+55/‑246)	sdhB → / → sucA	succinate dehydrogenase, FeS subunit/2‑oxoglutarate decarboxylase, thiamine triphosphate‑binding
RA	758,466	G→T	6.1%	intergenic (+61/‑240)	sdhB → / → sucA	succinate dehydrogenase, FeS subunit/2‑oxoglutarate decarboxylase, thiamine triphosphate‑binding
RA	758,467	A→C	6.2%	intergenic (+62/‑239)	sdhB → / → sucA	succinate dehydrogenase, FeS subunit/2‑oxoglutarate decarboxylase, thiamine triphosphate‑binding
RA	758,473	T→G	6.0%	intergenic (+68/‑233)	sdhB → / → sucA	succinate dehydrogenase, FeS subunit/2‑oxoglutarate decarboxylase, thiamine triphosphate‑binding
RA	758,474	T→C	6.0%	intergenic (+69/‑232)	sdhB → / → sucA	succinate dehydrogenase, FeS subunit/2‑oxoglutarate decarboxylase, thiamine triphosphate‑binding
RA	762,862	A→G	5.7%	intergenic (+123/‑152)	sucB → / → sucC	dihydrolipoyltranssuccinase/succinyl‑CoA synthetase, beta subunit
RA	762,863	A→C	6.5%	intergenic (+124/‑151)	sucB → / → sucC	dihydrolipoyltranssuccinase/succinyl‑CoA synthetase, beta subunit
RA	762,869	A→T	6.3%	intergenic (+130/‑145)	sucB → / → sucC	dihydrolipoyltranssuccinase/succinyl‑CoA synthetase, beta subunit
RA	762,870	A→T	6.3%	intergenic (+131/‑144)	sucB → / → sucC	dihydrolipoyltranssuccinase/succinyl‑CoA synthetase, beta subunit
RA	770,805	G→A	20.0%	intergenic (+194/‑653)	mngB → / → cydA	alpha‑mannosidase/cytochrome d terminal oxidase, subunit I
RA	770,810	T→C	21.4%	intergenic (+199/‑648)	mngB → / → cydA	alpha‑mannosidase/cytochrome d terminal oxidase, subunit I
RA	773,553	T→C	7.8%	L171P (CTG→CCG) ‡	cydB →	cytochrome d terminal oxidase, subunit II
RA	773,554	G→A	7.8%	L171L (CTG→CTA) ‡	cydB →	cytochrome d terminal oxidase, subunit II
RA	779,659	C→A	6.2%	P21H (CCC→CAC) ‡	ybgF →	periplasmic TolA‑binding protein
RA	779,660	C→G	6.2%	P21P (CCC→CCG) ‡	ybgF →	periplasmic TolA‑binding protein
RA	779,661	T→G	5.9%	W22G (TGG→GGG)	ybgF →	periplasmic TolA‑binding protein
RA	781,326	A→T	6.9%	intergenic (+104/‑43)	lysY → / → lysZ	tRNA‑Lys/tRNA‑Lys
RA	782,999	T→G	6.8%	L305L (CTT→CTG)	nadA →	quinolinate synthase, subunit A
RA	783,000	C→A	6.6%	Q306K (CAG→AAG)	nadA →	quinolinate synthase, subunit A
RA	790,931	C→G	9.1%	W33C (TGG→TGC)	galT ←	galactose‑1‑phosphate uridylyltransferase
RA	805,312	G→T	7.7%	E604* (GAG→TAG) ‡	ybhJ →	aconitase family protein
RA	805,313	A→C	7.7%	E604A (GAG→GCG) ‡	ybhJ →	aconitase family protein
RA	813,570:1	+T	8.2%	coding (45/2022 nt)	uvrB →	exision nuclease of nucleotide excision repair, DNA damage recognition component
RA	813,575	Δ1 bp	8.7%	coding (50/2022 nt)	uvrB →	exision nuclease of nucleotide excision repair, DNA damage recognition component
RA	824,572	T→A	5.0%	intergenic (‑75/‑58)	ybhP ← / → ybhQ	endo/exonuclease/phosphatase family protein/inner membrane protein
RA	824,573	T→A	5.0%	intergenic (‑76/‑57)	ybhP ← / → ybhQ	endo/exonuclease/phosphatase family protein/inner membrane protein
RA	843,342	A→T	6.7%	V713V (GTT→GTA) ‡	ybiO ←	mechanosensitive channel protein, intermediate conductance
RA	843,343	A→T	6.7%	V713D (GTT→GAT) ‡	ybiO ←	mechanosensitive channel protein, intermediate conductance
RA	843,347	C→G	6.8%	G712R (GGC→CGC)	ybiO ←	mechanosensitive channel protein, intermediate conductance
RA	847,213	A→T	9.8%	intergenic (‑94/+45)	glnP ← / ← glnH	glutamine transporter subunit/glutamine transporter subunit
RA	847,214	T→A	9.7%	intergenic (‑95/+44)	glnP ← / ← glnH	glutamine transporter subunit/glutamine transporter subunit
RA	847,215	A→T	9.8%	intergenic (‑96/+43)	glnP ← / ← glnH	glutamine transporter subunit/glutamine transporter subunit
RA	850,995	T→G	6.2%	intergenic (+30/+19)	ompX → / ← opgE	outer membrane protein X/OPG biosynthetic transmembrane phosphoethanolamine transferase
RA	857,576	T→C	19.2%	intergenic (+21/+220)	ybiT → / ← ybiU	ABC‑F family putative regulatory ATPase/DUF1479 family protein
RA	857,578	C→G	20.0%	intergenic (+23/+218)	ybiT → / ← ybiU	ABC‑F family putative regulatory ATPase/DUF1479 family protein
RA	857,580	G→A	20.0%	intergenic (+25/+216)	ybiT → / ← ybiU	ABC‑F family putative regulatory ATPase/DUF1479 family protein
RA	867,717	G→C	7.6%	L66F (TTG→TTC)	gsiA →	glutathione ABC transporter ATPase
RA	867,718	G→C	7.5%	E67Q (GAA→CAA)	gsiA →	glutathione ABC transporter ATPase
RA	870,888	T→G	7.4%	L493R (CTG→CGG)	gsiB →	glutathione ABC transporter periplasmic binding protein
RA	870,890	A→T	7.1%	T494S (ACC→TCC) ‡	gsiB →	glutathione ABC transporter periplasmic binding protein
RA	870,892	C→A	7.2%	T494T (ACC→ACA) ‡	gsiB →	glutathione ABC transporter periplasmic binding protein
RA	887,392	T→A	10.6%	intergenic (‑53/‑31)	ybjJ ← / → rcdA	putative drug efflux MFS transporter, inner membrane protein/transcriptional regulator of csgD and ybiJI; autoregulator
RA	887,393	T→A	10.7%	intergenic (‑54/‑30)	ybjJ ← / → rcdA	putative drug efflux MFS transporter, inner membrane protein/transcriptional regulator of csgD and ybiJI; autoregulator
RA	892,455	G→C	9.3%	V163V (GTG→GTC)	rimK →	ribosomal protein S6 modification protein
RA	892,457	T→A	9.0%	I164N (ATT→AAT)	rimK →	ribosomal protein S6 modification protein
RA	892,459	G→C	9.1%	D165H (GAC→CAC)	rimK →	ribosomal protein S6 modification protein
RA	899,680	A→G	6.2%	intergenic (+35/+164)	rlmC → / ← artJ	23S rRNA m(5)U747 methyltransferase, SAM‑dependent/arginine ABC transporter periplasmic binding protein
RA	915,080	G→C	7.3%	intergenic (‑223/+272)	ybjE ← / ← aqpZ	putative transporter/aquaporin Z
RA	915,081	G→C	7.3%	intergenic (‑224/+271)	ybjE ← / ← aqpZ	putative transporter/aquaporin Z
RA	922,314:1	+C	8.2%	intergenic (+21/+52)	macB → / ← cspD	macrolide ABC transporter peremase/ATPase/inhibitor of DNA replication, cold shock protein homolog
RA	958,769	C→G	8.5%	intergenic (+28/‑43)	serC → / → aroA	3‑phosphoserine/phosphohydroxythreonine aminotransferase/5‑enolpyruvylshikimate‑3‑phosphate synthetase
RA	958,771	A→T	8.5%	intergenic (+30/‑41)	serC → / → aroA	3‑phosphoserine/phosphohydroxythreonine aminotransferase/5‑enolpyruvylshikimate‑3‑phosphate synthetase
RA	958,773	C→G	8.5%	intergenic (+32/‑39)	serC → / → aroA	3‑phosphoserine/phosphohydroxythreonine aminotransferase/5‑enolpyruvylshikimate‑3‑phosphate synthetase
RA	964,148	T→C	9.9%	intergenic (+36/‑172)	ihfB → / → ycaI	integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein
RA	964,150	T→A	9.9%	intergenic (+38/‑170)	ihfB → / → ycaI	integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein
RA	964,152	G→A	9.9%	intergenic (+40/‑168)	ihfB → / → ycaI	integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein
RA	1,004,741	T→G	7.3%	intergenic (+84/‑27)	ycbF → / → pyrD	putative periplasmic pilin chaperone/dihydro‑orotate oxidase, FMN‑linked
RA	1,004,746	C→A	7.2%	intergenic (+89/‑22)	ycbF → / → pyrD	putative periplasmic pilin chaperone/dihydro‑orotate oxidase, FMN‑linked
RA	1,015,912	T→A	21.6%	intergenic (+30/+40)	rmf → / ← fabA	ribosome modulation factor/beta‑hydroxydecanoyl thioester dehydrase
RA	1,041,937	T→G	6.4%	intergenic (+22/+93)	appA → / ← etk	phosphoanhydride phosphorylase/tyrosine‑protein kinase, role in O‑antigen capsule formation
RA	1,041,940	C→A	6.6%	intergenic (+25/+90)	appA → / ← etk	phosphoanhydride phosphorylase/tyrosine‑protein kinase, role in O‑antigen capsule formation
RA	1,064,160	T→C	14.5%	L42P (CTG→CCG) ‡	yccE →	uncharacterized protein
RA	1,064,161	G→A	14.5%	L42L (CTG→CTA) ‡	yccE →	uncharacterized protein
RA	1,068,312	G→A	6.1%	intergenic (+58/+199)	ymdF → / ← rutG	KGG family protein/pyrimidine permease
RA	1,068,317	T→G	6.1%	intergenic (+63/+194)	ymdF → / ← rutG	KGG family protein/pyrimidine permease
RA	1,068,320	C→A	6.1%	intergenic (+66/+191)	ymdF → / ← rutG	KGG family protein/pyrimidine permease
RA	1,074,945	T→G	6.0%	N1313T (AAC→ACC)	putA ←	fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase
RA	1,074,948	C→A	6.0%	G1312V (GGT→GTT)	putA ←	fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase
RA	1,075,515	G→T	5.4%	A1123E (GCG→GAG)	putA ←	fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase
RA	1,075,518	A→C	5.3%	L1122R (CTC→CGC)	putA ←	fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase
RA	1,078,596	G→A	5.5%	T96I (ACC→ATC)	putA ←	fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase
RA	1,078,598	G→C	5.6%	I95M (ATC→ATG) ‡	putA ←	fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase
RA	1,078,600	T→C	5.4%	I95V (ATC→GTC) ‡	putA ←	fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase
RA	1,105,994	G→A	5.9%	D59N (GAT→AAT)	ymdB →	O‑acetyl‑ADP‑ribose deacetylase; RNase III inhibitor during cold shock; putative cardiolipin synthase C regulatory subunit
RA	1,113,544	G→A	9.3%	intergenic (+138/‑35)	opgH → / → yceK	OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist/outer membrane integrity lipoprotein
RA	1,113,546	T→A	9.3%	intergenic (+140/‑33)	opgH → / → yceK	OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist/outer membrane integrity lipoprotein
RA	1,113,548	T→C	9.1%	intergenic (+142/‑31)	opgH → / → yceK	OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist/outer membrane integrity lipoprotein
RA	1,116,854	A→C	5.3%	K16N (AAA→AAC)	yceA →	putative rhodanese‑related sulfurtransferase
RA	1,116,857	G→T	5.3%	M17I (ATG→ATT)	yceA →	putative rhodanese‑related sulfurtransferase
RA	1,125,734	G→C	6.2%	G58A (GGC→GCC)	rimJ →	ribosomal‑protein‑S5‑alanine N‑acetyltransferase
RA	1,125,740	A→C	6.2%	Q60P (CAG→CCG) ‡	rimJ →	ribosomal‑protein‑S5‑alanine N‑acetyltransferase
RA	1,125,741	G→T	7.2%	Q60H (CAG→CAT) ‡	rimJ →	ribosomal‑protein‑S5‑alanine N‑acetyltransferase
RA	1,147,548	T→G	8.8%	intergenic (+8/‑73)	rpmF → / → plsX	50S ribosomal subunit protein L32/putative phosphate acyltransferase
RA	1,147,549	C→A	9.5%	intergenic (+9/‑72)	rpmF → / → plsX	50S ribosomal subunit protein L32/putative phosphate acyltransferase
RA	1,151,873	T→A	11.3%	intergenic (+22/‑66)	acpP → / → fabF	acyl carrier protein (ACP)/3‑oxoacyl‑[acyl‑carrier‑protein] synthase II
RA	1,151,874	T→A	11.3%	intergenic (+23/‑65)	acpP → / → fabF	acyl carrier protein (ACP)/3‑oxoacyl‑[acyl‑carrier‑protein] synthase II
RA	1,153,208	T→C	7.6%	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	7.4%	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	7.3%	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	7.3%	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	1,159,335	G→T	8.8%	intergenic (+33/+27)	ptsG → / ← fhuE	fused glucose‑specific PTS enzymes: IIB component/IIC component/ferric‑rhodotorulic acid outer membrane transporter
RA	1,159,336	A→C	9.1%	intergenic (+34/+26)	ptsG → / ← fhuE	fused glucose‑specific PTS enzymes: IIB component/IIC component/ferric‑rhodotorulic acid outer membrane transporter
RA	1,170,282	C→G	13.8%	W31C (TGG→TGC)	ldtC ←	L,D‑transpeptidase linking Lpp to murein
RA	1,174,077	G→A	9.1%	intergenic (‑113/+15)	mfd ← / ← ycfT	transcription‑repair coupling factor/inner membrane protein
RA	1,174,080	T→C	9.1%	intergenic (‑116/+12)	mfd ← / ← ycfT	transcription‑repair coupling factor/inner membrane protein
RA	1,174,501	A→T	8.6%	L222Q (CTG→CAG)	ycfT ←	inner membrane protein
RA	1,174,504	A→T	8.7%	L221Q (CTG→CAG)	ycfT ←	inner membrane protein
RA	1,196,803	A→C	5.3%	intergenic (+430/+64)	icd → / ← ymfD	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase/e14 prophage; putative SAM‑dependent methyltransferase
RA	1,196,804	G→T	5.4%	intergenic (+431/+63)	icd → / ← ymfD	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase/e14 prophage; putative SAM‑dependent methyltransferase
RA	1,224,239	A→T	8.5%	intergenic (+332/+40)	ycgI → / ← minE	pseudogene/cell division topological specificity factor
RA	1,224,242	A→T	7.8%	intergenic (+335/+37)	ycgI → / ← minE	pseudogene/cell division topological specificity factor
RA	1,226,832	T→G	6.7%	F78C (TTT→TGT)	ycgJ →	uncharacterized protein
RA	1,226,835	C→A	6.6%	T79K (ACA→AAA)	ycgJ →	uncharacterized protein
RA	1,260,901	C→T	7.0%	intergenic (‑98/+27)	dauA ← / ← prs	C4‑dicarboxylic acid transporter/phosphoribosylpyrophosphate synthase
RA	1,260,904	A→G	7.0%	intergenic (‑101/+24)	dauA ← / ← prs	C4‑dicarboxylic acid transporter/phosphoribosylpyrophosphate synthase
RA	1,285,190	T→A	10.8%	L18I (TTA→ATA)	narJ →	molybdenum‑cofactor‑assembly chaperone delta subunit of nitrate reductase 1
RA	1,285,193	T→A	11.0%	W19R (TGG→AGG)	narJ →	molybdenum‑cofactor‑assembly chaperone delta subunit of nitrate reductase 1
RA	1,306,787	G→A	5.3%	intergenic (+19/+34)	oppF → / ← yciU	oligopeptide ABC transporter ATPase/UPF0263 family protein
RA	1,306,788	T→C	5.5%	intergenic (+20/+33)	oppF → / ← yciU	oligopeptide ABC transporter ATPase/UPF0263 family protein
RA	1,324,837	A→C	5.4%	Y31S (TAT→TCT) ‡	yciQ →	enhancer of membrane protein expression; putative inner membrane protein
RA	1,324,838	T→A	5.3%	Y31* (TAT→TAA) ‡	yciQ →	enhancer of membrane protein expression; putative inner membrane protein
RA	1,324,839	G→T	5.4%	E32* (GAA→TAA)	yciQ →	enhancer of membrane protein expression; putative inner membrane protein
RA	1,344,033	A→G	9.2%	L105P (CTG→CCG)	yciT ←	global regulator of transcription; DeoR family
RA	1,344,036	G→C	9.3%	T104S (ACT→AGT)	yciT ←	global regulator of transcription; DeoR family
RA	1,344,039	C→T	9.0%	R103Q (CGG→CAG)	yciT ←	global regulator of transcription; DeoR family
RA	1,354,227	T→G	6.7%	T98P (ACC→CCC)	sapC ←	antimicrobial peptide transport ABC transporter permease
RA	1,381,915	G→T	6.6%	intergenic (+13/‑32)	ycjV → / → ompG	pseudogene; putative ATP‑binding component of a transport system/outer membrane porin G
RA	1,381,918	A→C	6.5%	intergenic (+16/‑29)	ycjV → / → ompG	pseudogene; putative ATP‑binding component of a transport system/outer membrane porin G
RA	1,388,283	C→T	10.0%	intergenic (+22/+22)	tyrR → / ← tpx	aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase
RA	1,388,284	A→T	10.0%	intergenic (+23/+21)	tyrR → / ← tpx	aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase
RA	1,388,285	A→G	10.1%	intergenic (+24/+20)	tyrR → / ← tpx	aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase
RA	1,426,178	A→T	13.0%	intergenic (+96/‑276)	ydaY → / → tmpR	pseudogene, Rac prophage;Phage or Prophage Related/Rac prophage; pseudogene, tail protein family;Phage or Prophage Related; putative alpha helix protein
RA	1,443,803	G→A	5.5%	P251P (CCG→CCA)	ydbH →	putative membrane‑anchored protein, function unknown
RA	1,443,804	T→C	5.5%	W252R (TGG→CGG)	ydbH →	putative membrane‑anchored protein, function unknown
RA	1,445,616	G→C	5.0%	A856P (GCA→CCA)	ydbH →	putative membrane‑anchored protein, function unknown
RA	1,445,621	G→C	5.6%	W857C (TGG→TGC)	ydbH →	putative membrane‑anchored protein, function unknown
RA	1,449,050	T→A	11.1%	intergenic (+32/+26)	feaB → / ← tynA	phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring
RA	1,498,892	A→T	12.2%	intergenic (+17/‑46)	ydcH → / → rimL	DUF465 family protein/ribosomal‑protein‑L7/L12‑serine acetyltransferase
RA	1,498,894	C→G	12.5%	intergenic (+19/‑44)	ydcH → / → rimL	DUF465 family protein/ribosomal‑protein‑L7/L12‑serine acetyltransferase
RA	1,498,896	A→T	12.3%	intergenic (+21/‑42)	ydcH → / → rimL	DUF465 family protein/ribosomal‑protein‑L7/L12‑serine acetyltransferase
RA	1,511,139	G→C	6.1%	W379C (TGG→TGC)	ydcR →	putative DNA‑binding transcriptional regulator and putative aminotransferase
RA	1,520,584	A→G	8.0%	D108G (GAC→GGC) ‡	mcbR →	colanic acid and biofilm gene transcriptional regulator, MqsR‑controlled
RA	1,520,585	C→T	8.1%	D108D (GAC→GAT) ‡	mcbR →	colanic acid and biofilm gene transcriptional regulator, MqsR‑controlled
RA	1,522,716	T→A	6.2%	D117V (GAC→GTC)	yncD ←	putative iron outer membrane transporter
RA	1,541,077	G→C	8.0%	A505G (GCC→GGC)	narZ ←	nitrate reductase 2 (NRZ), alpha subunit
RA	1,552,377	G→A	7.3%	intergenic (+386/+21)	fdnI → / ← yddM	formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator
RA	1,552,388	T→C	7.1%	intergenic (+397/+10)	fdnI → / ← yddM	formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator
RA	1,557,343	C→T	6.5%	T232T (ACG→ACA) ‡	ddpF ←	D,D‑dipeptide ABC transporter ATPase
RA	1,557,345	T→A	6.4%	T232S (ACG→TCG) ‡	ddpF ←	D,D‑dipeptide ABC transporter ATPase
RA	1,557,347	A→G	7.0%	L231P (CTG→CCG)	ddpF ←	D,D‑dipeptide ABC transporter ATPase
RA	1,608,704	A→G	10.5%	S107P (TCG→CCG)	yneE ←	bestrophin family putative inner membrane protein
RA	1,608,707	C→T	10.7%	D106N (GAT→AAT)	yneE ←	bestrophin family putative inner membrane protein
RA	1,609,555	Δ1 bp	5.4%	coding (1126/1452 nt)	uxaB ←	altronate oxidoreductase, NAD‑dependent
RA	1,609,561:1	+C	5.4%	coding (1120/1452 nt)	uxaB ←	altronate oxidoreductase, NAD‑dependent
RA	1,642,370	C→G	9.8%	intergenic (+303/+119)	cspF → / ← quuQ	Qin prophage; cold shock protein/Qin prophage; putative antitermination protein Q
RA	1,642,373	C→G	9.8%	intergenic (+306/+116)	cspF → / ← quuQ	Qin prophage; cold shock protein/Qin prophage; putative antitermination protein Q
RA	1,679,398	T→A	6.3%	intergenic (+27/‑159)	ydgH → / → ydgI	DUF1471 family periplasmic protein/putative arginine/ornithine antiporter transporter
RA	1,679,400	G→C	6.2%	intergenic (+29/‑157)	ydgH → / → ydgI	DUF1471 family periplasmic protein/putative arginine/ornithine antiporter transporter
RA	1,679,402	T→A	6.2%	intergenic (+31/‑155)	ydgH → / → ydgI	DUF1471 family periplasmic protein/putative arginine/ornithine antiporter transporter
RA	1,684,016	A→G	7.8%	S379G (AGC→GGC)	rstB →	sensory histidine kinase of RstAB two‑component system
RA	1,684,019	C→T	6.9%	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	1,689,817	C→A	7.6%	intergenic (+66/‑35)	manA → / → ydgA	mannose‑6‑phosphate isomerase/DUF945 family protein
RA	1,689,819	A→T	7.4%	intergenic (+68/‑33)	manA → / → ydgA	mannose‑6‑phosphate isomerase/DUF945 family protein
RA	1,689,821	T→G	7.4%	intergenic (+70/‑31)	manA → / → ydgA	mannose‑6‑phosphate isomerase/DUF945 family protein
RA	1,692,976	T→C	5.1%	T430A (ACG→GCG)	uidB ←	glucuronide transporter
RA	1,692,977	G→T	5.1%	L429L (CTC→CTA) ‡	uidB ←	glucuronide transporter
RA	1,692,978	A→C	5.2%	L429R (CTC→CGC) ‡	uidB ←	glucuronide transporter
RA	1,692,979	G→A	5.2%	L429F (CTC→TTC) ‡	uidB ←	glucuronide transporter
RA	1,698,585	T→G	7.9%	E199A (GAA→GCA)	malI ←	transcriptional repressor of Mal regulon
RA	1,698,587	T→A	7.9%	A198A (GCA→GCT) ‡	malI ←	transcriptional repressor of Mal regulon
RA	1,698,589	C→A	7.8%	A198S (GCA→TCA) ‡	malI ←	transcriptional repressor of Mal regulon
RA	1,702,495	C→G	5.8%	A88G (GCC→GGC)	add →	adenosine deaminase
RA	1,702,500	C→G	6.5%	H90D (CAC→GAC)	add →	adenosine deaminase
RA	1,702,505	C→G	6.9%	G91G (GGC→GGG)	add →	adenosine deaminase
RA	1,703,251	A→T	12.8%	intergenic (+17/+17)	add → / ← ydgJ	adenosine deaminase/putative oxidoreductase
RA	1,703,252	A→T	12.8%	intergenic (+18/+16)	add → / ← ydgJ	adenosine deaminase/putative oxidoreductase
RA	1,708,468	A→T	5.8%	E517V (GAA→GTA) ‡	rsxC →	SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
RA	1,708,469	A→T	5.8%	E517D (GAA→GAT) ‡	rsxC →	SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
RA	1,712,337	A→T	10.1%	intergenic (+179/‑432)	nth → / → dtpA	DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III)/dipeptide and tripeptide permease A
RA	1,712,338	A→T	10.2%	intergenic (+180/‑431)	nth → / → dtpA	DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III)/dipeptide and tripeptide permease A
RA	1,720,240	A→T	6.0%	N122I (AAT→ATT)	slyB →	outer membrane lipoprotein
RA	1,720,364	G→T	5.3%	intergenic (+21/+26)	slyB → / ← slyA	outer membrane lipoprotein/global transcriptional regulator
RA	1,720,365	T→A	5.2%	intergenic (+22/+25)	slyB → / ← slyA	outer membrane lipoprotein/global transcriptional regulator
RA	1,720,366	T→A	5.2%	intergenic (+23/+24)	slyB → / ← slyA	outer membrane lipoprotein/global transcriptional regulator
RA	1,747,025	G→C	9.3%	intergenic (+20/‑106)	ydhR → / → ydhS	putative monooxygenase/putative oxidoreductase
RA	1,747,027	T→A	8.9%	intergenic (+22/‑104)	ydhR → / → ydhS	putative monooxygenase/putative oxidoreductase
RA	1,747,029	G→C	8.9%	intergenic (+24/‑102)	ydhR → / → ydhS	putative monooxygenase/putative oxidoreductase
RA	1,757,688	T→A	26.0%	intergenic (+31/+33)	lpp → / ← ldtE	murein lipoprotein/murein L,D‑transpeptidase
RA	1,764,687	T→C	6.4%	intergenic (‑301/+26)	sufA ← / ← rydB	Fe‑S cluster assembly protein/novel sRNA, function unknown
RA	1,769,777	T→G	7.6%	V235G (GTA→GGA)	ydiK →	UPF0118 family inner membrane protein
RA	1,769,780	C→A	7.8%	S236Y (TCC→TAC)	ydiK →	UPF0118 family inner membrane protein
RA	1,788,336	A→T	5.5%	intergenic (+58/‑99)	ppsR → / → aroH	PEP synthase kinase and PEP synthase pyrophosphorylase/3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, tryptophan repressible
RA	1,797,388	G→T	6.3%	P186Q (CCG→CAG)	pheT ←	phenylalanine tRNA synthetase, beta subunit
RA	1,797,391	A→C	5.5%	L185R (CTG→CGG)	pheT ←	phenylalanine tRNA synthetase, beta subunit
RA	1,799,370	Δ1 bp	5.5%	intergenic (‑100/+23)	pheM ← / ← rplT	phenylalanyl‑tRNA synthetase operon leader peptide/50S ribosomal subunit protein L20
RA	1,799,374:1	+T	5.3%	intergenic (‑104/+19)	pheM ← / ← rplT	phenylalanyl‑tRNA synthetase operon leader peptide/50S ribosomal subunit protein L20
RA	1,807,318	A→G	5.1%	intergenic (+19/‑82)	pfkB → / → ydiZ	6‑phosphofructokinase II/uncharacterized protein
RA	1,807,319	T→C	5.1%	intergenic (+20/‑81)	pfkB → / → ydiZ	6‑phosphofructokinase II/uncharacterized protein
RA	1,810,062	T→C	7.7%	intergenic (+14/‑149)	yniC → / → ydjM	2‑deoxyglucose‑6‑P phosphatase/inner membrane protein regulated by LexA
RA	1,810,065	T→G	8.0%	intergenic (+17/‑146)	yniC → / → ydjM	2‑deoxyglucose‑6‑P phosphatase/inner membrane protein regulated by LexA
RA	1,810,066	C→A	8.0%	intergenic (+18/‑145)	yniC → / → ydjM	2‑deoxyglucose‑6‑P phosphatase/inner membrane protein regulated by LexA
RA	1,810,069	G→A	8.0%	intergenic (+21/‑142)	yniC → / → ydjM	2‑deoxyglucose‑6‑P phosphatase/inner membrane protein regulated by LexA
RA	1,823,335	G→C	6.7%	intergenic (+50/‑180)	nadE → / → cho	NAD synthetase, NH3/glutamine‑dependent/endonuclease of nucleotide excision repair
RA	1,823,338	G→C	7.0%	intergenic (+53/‑177)	nadE → / → cho	NAD synthetase, NH3/glutamine‑dependent/endonuclease of nucleotide excision repair
RA	1,827,811	T→G	7.5%	K150T (AAA→ACA)	astB ←	succinylarginine dihydrolase
RA	1,827,816	C→A	7.1%	L148L (CTG→CTT)	astB ←	succinylarginine dihydrolase
RA	1,836,904	A→G	5.3%	S278G (AGC→GGC) ‡	ynjB →	putative ABC transporter periplasmic binding protein
RA	1,836,905	G→C	5.4%	S278T (AGC→ACC) ‡	ynjB →	putative ABC transporter periplasmic binding protein
RA	1,836,906	C→T	5.4%	S278S (AGC→AGT) ‡	ynjB →	putative ABC transporter periplasmic binding protein
RA	1,856,333	T→G	10.7%	E199A (GAG→GCG) ‡	ydjH ←	putative kinase
RA	1,856,334	C→A	11.7%	E199* (GAG→TAG) ‡	ydjH ←	putative kinase
RA	1,865,682	G→C	12.0%	intergenic (‑46/+44)	yeaE ← / ← mipA	aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent/scaffolding protein for murein synthesizing machinery
RA	1,868,859	Δ1 bp	5.5%	intergenic (+17/‑96)	yeaG → / → yeaH	protein kinase, endogenous substrate unidentified; autokinase/UPF0229 family protein
RA	1,880,851	T→A	8.1%	intergenic (‑92/+35)	leuE ← / ← dmlR	leucine efflux protein/transcriptional activator of dmlA
RA	1,880,852	T→A	8.1%	intergenic (‑93/+34)	leuE ← / ← dmlR	leucine efflux protein/transcriptional activator of dmlA
RA	1,883,027	C→G	8.6%	intergenic (+30/‑161)	dmlA → / → yeaV	D‑malate oxidase, NAD‑dependent; putative tartrate dehydrogenase/putative transporter
RA	1,888,030	A→T	7.0%	intergenic (‑39/+31)	rnd ← / ← fadD	ribonuclease D/acyl‑CoA synthetase (long‑chain‑fatty‑acid‑‑CoA ligase)
RA	1,888,032	T→A	6.9%	intergenic (‑41/+29)	rnd ← / ← fadD	ribonuclease D/acyl‑CoA synthetase (long‑chain‑fatty‑acid‑‑CoA ligase)
RA	1,888,034	A→T	7.1%	intergenic (‑43/+27)	rnd ← / ← fadD	ribonuclease D/acyl‑CoA synthetase (long‑chain‑fatty‑acid‑‑CoA ligase)
RA	1,895,391	A→T	8.8%	K196I (AAA→ATA) ‡	pabB →	aminodeoxychorismate synthase, subunit I
RA	1,895,392	A→T	8.9%	K196N (AAA→AAT) ‡	pabB →	aminodeoxychorismate synthase, subunit I
RA	1,904,592	C→A	5.9%	T233N (ACT→AAT)	manZ →	mannose‑specific enzyme IID component of PTS
RA	1,904,595	T→G	5.2%	I234S (ATT→AGT)	manZ →	mannose‑specific enzyme IID component of PTS
RA	1,906,229	T→G	6.2%	I181S (ATC→AGC) ‡	mntP →	putative Mn(2+) efflux pump, mntR‑regulated
RA	1,906,230	C→G	6.3%	I181M (ATC→ATG) ‡	mntP →	putative Mn(2+) efflux pump, mntR‑regulated
RA	1,906,231	C→A	7.2%	L182I (CTC→ATC)	mntP →	putative Mn(2+) efflux pump, mntR‑regulated
RA	1,910,295	A→T	6.8%	D7V (GAC→GTC)	yebQ →	putative transporter
RA	1,932,094	C→G	7.3%	intergenic (+35/+21)	purT → / ← eda	phosphoribosylglycinamide formyltransferase 2/KHG/KDPG aldolase; 2‑dehydro‑3‑deoxy‑phosphogluconate/4‑hydroxy‑2‑ oxoglutarate aldolase
RA	1,932,095	T→A	7.0%	intergenic (+36/+20)	purT → / ← eda	phosphoribosylglycinamide formyltransferase 2/KHG/KDPG aldolase; 2‑dehydro‑3‑deoxy‑phosphogluconate/4‑hydroxy‑2‑ oxoglutarate aldolase
RA	1,932,096	C→G	6.7%	intergenic (+37/+19)	purT → / ← eda	phosphoribosylglycinamide formyltransferase 2/KHG/KDPG aldolase; 2‑dehydro‑3‑deoxy‑phosphogluconate/4‑hydroxy‑2‑ oxoglutarate aldolase
RA	1,946,035	G→T	7.7%	intergenic (‑59/+80)	ruvA ← / ← yobI	component of RuvABC resolvasome, regulatory subunit/uncharacterized protein
RA	1,946,036	A→C	8.0%	intergenic (‑60/+79)	ruvA ← / ← yobI	component of RuvABC resolvasome, regulatory subunit/uncharacterized protein
RA	1,971,920	G→T	5.9%	Q258K (CAA→AAA)	tar ←	methyl‑accepting chemotaxis protein II
RA	1,971,923	T→C	5.9%	M257V (ATG→GTG)	tar ←	methyl‑accepting chemotaxis protein II
RA	1,971,926	G→A	6.0%	H256Y (CAT→TAT)	tar ←	methyl‑accepting chemotaxis protein II
RA	1,971,929	A→C	5.8%	S255A (TCA→GCA)	tar ←	methyl‑accepting chemotaxis protein II
MC JC	1,978,503	Δ776 bp	100%		insB1–insA	insB1, insA
RA	1,985,112	C→G	16.1%	intergenic (‑43/+27)	araG ← / ← araF	L‑arabinose ABC transporter ATPase/L‑arabinose ABC transporter periplasmic binding protein
RA	2,015,191	C→T	6.0%	A104A (GCC→GCT)	fliG →	flagellar motor switching and energizing component
RA	2,015,192	A→G	6.0%	S105G (AGC→GGC)	fliG →	flagellar motor switching and energizing component
RA	2,044,721	G→A	8.3%	intergenic (+97/‑217)	asnT → / → yeeJ	tRNA‑Asn/putative adhesin
RA	2,044,725	T→A	6.0%	intergenic (+101/‑213)	asnT → / → yeeJ	tRNA‑Asn/putative adhesin
RA	2,044,733	T→C	10.4%	intergenic (+109/‑205)	asnT → / → yeeJ	tRNA‑Asn/putative adhesin
RA	2,070,230	T→A	6.6%	intergenic (‑50/‑47)	insC1 ← / → yoeA	IS2 repressor TnpA/CP4‑44 prophage; putative disrupted hemin or colicin receptor;Phage or Prophage Related; interrupted by IS2 and C‑terminal deletion
RA	2,074,810	Δ1 bp	5.6%	coding (32/1533 nt)	yeeR →	CP4‑44 prophage; putative membrane protein
RA	2,074,814:1	+A	5.3%	coding (36/1533 nt)	yeeR →	CP4‑44 prophage; putative membrane protein
RA	2,081,057	A→G	5.5%	V69A (GTG→GCG) ‡	sbmC ←	DNA gyrase inhibitor
RA	2,081,058	C→T	5.5%	V69M (GTG→ATG) ‡	sbmC ←	DNA gyrase inhibitor
RA	2,088,626	T→C	5.3%	H168R (CAT→CGT)	yeeZ ←	putative epimerase
RA	2,090,122	A→G	15.5%	intergenic (+76/‑70)	hisL → / → hisG	his operon leader peptide/ATP phosphoribosyltransferase
RA	2,090,124	C→G	16.1%	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	2,093,965	C→G	7.5%	D166E (GAC→GAG)	hisB →	histidinol‑phosphatase and imidazoleglycerol‑phosphate dehydratase
RA	2,093,969	T→A	6.9%	Y168N (TAC→AAC)	hisB →	histidinol‑phosphatase and imidazoleglycerol‑phosphate dehydratase
RA	2,093,973	C→G	6.9%	A169G (GCT→GGT)	hisB →	histidinol‑phosphatase and imidazoleglycerol‑phosphate dehydratase
RA	2,103,105	C→A	10.7%	pseudogene (285/446 nt)	wbbL ←	pseudogene, lipopolysaccharide biosynthesis protein
RA	2,103,106	T→A	10.9%	pseudogene (284/446 nt)	wbbL ←	pseudogene, lipopolysaccharide biosynthesis protein
RA	2,103,107	T→G	10.8%	pseudogene (283/446 nt)	wbbL ←	pseudogene, lipopolysaccharide biosynthesis protein
RA	2,121,583	Δ1 bp	6.4%	intergenic (‑29/+26)	wcaJ ← / ← cpsG	colanic biosynthesis UDP‑glucose lipid carrier transferase/phosphomannomutase
RA	2,121,586	G→C	6.5%	intergenic (‑32/+23)	wcaJ ← / ← cpsG	colanic biosynthesis UDP‑glucose lipid carrier transferase/phosphomannomutase
RA	2,121,588:1	+C	7.0%	intergenic (‑34/+21)	wcaJ ← / ← cpsG	colanic biosynthesis UDP‑glucose lipid carrier transferase/phosphomannomutase
RA	2,129,903	T→A	5.4%	N326Y (AAT→TAT)	wcaD ←	putative colanic acid polymerase
RA	2,145,313	C→A	100%	S683Y (TCC→TAC)	yegE →	putative diguanylate cyclase
RA	2,147,470	A→G	5.7%	V24A (GTG→GCG)	alkA ←	3‑methyl‑adenine DNA glycosylase II
RA	2,147,475	A→C	5.5%	R22R (CGT→CGG)	alkA ←	3‑methyl‑adenine DNA glycosylase II
RA	2,165,626	T→C	5.3%	intergenic (+105/‑42)	yegP → / → yegQ	UPF0339 family protein/putative peptidase
RA	2,165,628	A→T	5.3%	intergenic (+107/‑40)	yegP → / → yegQ	UPF0339 family protein/putative peptidase
RA	2,165,630	G→A	5.1%	intergenic (+109/‑38)	yegP → / → yegQ	UPF0339 family protein/putative peptidase
RA	2,169,665	A→T	5.2%	intergenic (+54/+28)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,172,350	A→T	5.7%	L175Q (CTG→CAG)	gatD ←	galactitol‑1‑phosphate dehydrogenase, Zn‑dependent and NAD(P)‑binding
RA	2,172,353	A→T	5.7%	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	8.1%	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	7.6%	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	7.5%	intergenic (‑136/+172)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,177,345	A→G	7.1%	intergenic (‑141/+167)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,193,709	T→A	6.7%	M154L (ATG→TTG)	mrp ←	antiporter inner membrane protein
RA	2,219,640	A→C	5.5%	intergenic (‑159/+52)	osmF ← / ← bglX	putative ABC transporter periplasmic binding protein/beta‑D‑glucoside glucohydrolase, periplasmic
RA	2,230,415	T→A	5.5%	intergenic (‑30/‑209)	dusC ← / → yohJ	tRNA‑dihydrouridine synthase C/UPF0299 family inner membrane protein
RA	2,230,416	G→C	5.8%	intergenic (‑31/‑208)	dusC ← / → yohJ	tRNA‑dihydrouridine synthase C/UPF0299 family inner membrane protein
RA	2,230,417	T→A	5.6%	intergenic (‑32/‑207)	dusC ← / → yohJ	tRNA‑dihydrouridine synthase C/UPF0299 family inner membrane protein
RA	2,270,602	T→C	7.4%	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	7.4%	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	7.9%	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	7.7%	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	7.7%	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	2,291,284	C→A	14.3%	intergenic (+137/+74)	narP → / ← ccmH	response regulator in two‑component regulatory system with NarQ/heme lyase, CcmH subunit
RA	2,314,800	A→C	9.2%	Q438P (CAG→CCG) ‡	rcsD →	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
RA	2,314,801	G→T	9.2%	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	2,326,750	C→G	7.9%	F214L (TTC→TTG)	atoB →	acetyl‑CoA acetyltransferase
RA	2,326,752	G→C	7.8%	S215T (AGT→ACT)	atoB →	acetyl‑CoA acetyltransferase
RA	2,326,754	C→G	7.8%	Q216E (CAA→GAA)	atoB →	acetyl‑CoA acetyltransferase
RA	2,373,177	G→A	9.3%	G96S (GGC→AGC)	arnF →	undecaprenyl phosphate‑alpha‑L‑ara4N exporter; flippase ArnEF subunit
RA	2,373,180	T→C	9.2%	W97R (TGG→CGG)	arnF →	undecaprenyl phosphate‑alpha‑L‑ara4N exporter; flippase ArnEF subunit
RA	2,375,483	A→T	5.8%	L160L (CTT→CTA) ‡	menC ←	O‑succinylbenzoyl‑CoA synthase
RA	2,375,484	A→T	5.8%	L160H (CTT→CAT) ‡	menC ←	O‑succinylbenzoyl‑CoA synthase
RA	2,383,956	A→T	31.0%	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	31.0%	intergenic (+35/+36)	elaD → / ← yfbK	protease, capable of cleaving an AMC‑ubiquitin model substrate/Von Willebrand factor domain putative lipoprotein
RA	2,391,254	G→C	5.3%	S84R (AGC→AGG)	nuoN ←	NADH:ubiquinone oxidoreductase, membrane subunit N
RA	2,400,355:1	+A	5.1%	coding (1201/1338 nt)	nuoF ←	NADH:ubiquinone oxidoreductase, chain F
RA	2,414,689	C→G	7.9%	intergenic (+17/‑58)	ackA → / → pta	acetate kinase A and propionate kinase 2/phosphate acetyltransferase
RA	2,419,395	C→G	7.6%	V132L (GTG→CTG)	yfcE ←	phosphodiesterase activity on bis‑pNPP
RA	2,427,622	T→G	6.3%	N57T (AAC→ACC)	argT ←	lysine/arginine/ornithine transporter subunit
RA	2,427,625	C→A	6.3%	G56V (GGT→GTT)	argT ←	lysine/arginine/ornithine transporter subunit
RA	2,432,985	A→G	14.8%	intergenic (‑43/+27)	folC ← / ← accD	bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit
RA	2,432,990	G→C	15.0%	intergenic (‑48/+22)	folC ← / ← accD	bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit
RA	2,432,995	C→T	14.2%	intergenic (‑53/+17)	folC ← / ← accD	bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit
RA	2,440,865	C→T	5.3%	L247L (CTG→CTA)	fabB ←	3‑oxoacyl‑[acyl‑carrier‑protein] synthase I
RA	2,518,197	C→G	5.4%	noncoding (35/76 nt)	alaW ←	tRNA‑Ala
RA	2,521,344	C→T	25.0%	intergenic (+16/+249)	lysV → / ← xapR	tRNA‑Lys/transcriptional activator of xapAB
RA	2,521,346	A→T	22.7%	intergenic (+18/+247)	lysV → / ← xapR	tRNA‑Lys/transcriptional activator of xapAB
RA	2,521,348	A→G	22.7%	intergenic (+20/+245)	lysV → / ← xapR	tRNA‑Lys/transcriptional activator of xapAB
RA	2,521,500	C→T	11.9%	intergenic (+172/+93)	lysV → / ← xapR	tRNA‑Lys/transcriptional activator of xapAB
RA	2,521,502	A→T	10.9%	intergenic (+174/+91)	lysV → / ← xapR	tRNA‑Lys/transcriptional activator of xapAB
RA	2,521,504	A→G	10.9%	intergenic (+176/+89)	lysV → / ← xapR	tRNA‑Lys/transcriptional activator of xapAB
RA	2,525,907	G→A	6.3%	intergenic (+16/+23)	yfeN → / ← yfeR	putative outer membrane protein/transcriptional regulator of yefH
RA	2,525,908	C→G	6.2%	intergenic (+17/+22)	yfeN → / ← yfeR	putative outer membrane protein/transcriptional regulator of yefH
RA	2,533,415	T→A	9.5%	intergenic (+35/‑349)	cysK → / → ptsH	cysteine synthase A, O‑acetylserine sulfhydrolase A subunit/phosphohistidinoprotein‑hexose phosphotransferase component of PTS system (Hpr)
RA	2,533,416	T→A	9.5%	intergenic (+36/‑348)	cysK → / → ptsH	cysteine synthase A, O‑acetylserine sulfhydrolase A subunit/phosphohistidinoprotein‑hexose phosphotransferase component of PTS system (Hpr)
RA	2,533,417	T→A	9.5%	intergenic (+37/‑347)	cysK → / → ptsH	cysteine synthase A, O‑acetylserine sulfhydrolase A subunit/phosphohistidinoprotein‑hexose phosphotransferase component of PTS system (Hpr)
RA	2,533,418	T→A	9.5%	intergenic (+38/‑346)	cysK → / → ptsH	cysteine synthase A, O‑acetylserine sulfhydrolase A subunit/phosphohistidinoprotein‑hexose phosphotransferase component of PTS system (Hpr)
RA	2,549,548	T→G	6.6%	intergenic (+142/+98)	yfeW → / ← yfeX	penicillin binding protein PBP4B; weak DD‑carboxypeptidase activity/porphyrinogen oxidase, cytoplasmic
RA	2,549,549	C→A	6.3%	intergenic (+143/+97)	yfeW → / ← yfeX	penicillin binding protein PBP4B; weak DD‑carboxypeptidase activity/porphyrinogen oxidase, cytoplasmic
RA	2,566,266	C→A	8.0%	G207C (GGC→TGC)	eutA ←	reactivating factor for ethanolamine ammonia lyase
RA	2,566,267	T→G	8.0%	A206A (GCA→GCC)	eutA ←	reactivating factor for ethanolamine ammonia lyase
RA	2,587,131	G→C	5.2%	Q467H (CAG→CAC)	narQ →	sensory histidine kinase in two‑component regulatory system with NarP
RA	2,587,132	G→C	5.2%	V468L (GTG→CTG)	narQ →	sensory histidine kinase in two‑component regulatory system with NarP
RA	2,589,122	G→A	6.9%	G510S (GGC→AGC)	acrD →	aminoglycoside/multidrug efflux system
RA	2,589,125	T→C	7.3%	F511L (TTT→CTT)	acrD →	aminoglycoside/multidrug efflux system
RA	2,590,767	T→C	7.1%	intergenic (+59/+40)	acrD → / ← ypfM	aminoglycoside/multidrug efflux system/stress‑induced small enterobacterial protein
RA	2,590,771	C→G	6.9%	intergenic (+63/+36)	acrD → / ← ypfM	aminoglycoside/multidrug efflux system/stress‑induced small enterobacterial protein
RA	2,590,775	G→A	7.0%	intergenic (+67/+32)	acrD → / ← ypfM	aminoglycoside/multidrug efflux system/stress‑induced small enterobacterial protein
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	10.8%	intergenic (‑141/+27)	ypfJ ← / ← purC	putative neutral zinc metallopeptidase/phosphoribosylaminoimidazole‑succinocarboxamide synthetase
RA	2,612,973	C→G	6.7%	L358L (CTC→CTG)	hyfR →	hydrogenase‑4 transcriptional activator
RA	2,612,974	C→G	7.5%	Q359E (CAG→GAG)	hyfR →	hydrogenase‑4 transcriptional activator
RA	2,637,433	C→T	8.7%	intergenic (‑77/+41)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,637,438	T→G	8.5%	intergenic (‑82/+36)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,637,439	C→A	8.3%	intergenic (‑83/+35)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,637,444	A→G	8.7%	intergenic (‑88/+30)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,652,131	G→T	8.4%	P53T (CCG→ACG)	yfhM ←	bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein
RA	2,652,132	C→G	8.3%	V52V (GTG→GTC) ‡	yfhM ←	bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein
RA	2,652,133	A→C	8.2%	V52G (GTG→GGG) ‡	yfhM ←	bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein
RA	2,653,372	T→C	7.6%	intergenic (+33/‑483)	sseA → / → ryfA	3‑mercaptopyruvate sulfurtransferase/novel sRNA, function unknown
RA	2,658,422	C→G	6.5%	A172P (GCG→CCG)	hscA ←	DnaK‑like molecular chaperone specific for IscU
RA	2,660,611	G→T	5.1%	Y307* (TAC→TAA) ‡	iscS ←	cysteine desulfurase (tRNA sulfurtransferase), PLP‑dependent
RA	2,660,612	T→A	5.1%	Y307F (TAC→TTC) ‡	iscS ←	cysteine desulfurase (tRNA sulfurtransferase), PLP‑dependent
RA	2,660,613	A→C	5.0%	Y307D (TAC→GAC) ‡	iscS ←	cysteine desulfurase (tRNA sulfurtransferase), PLP‑dependent
RA	2,673,790	G→T	5.8%	intergenic (+22/+26)	yphA → / ← yphB	DoxX family inner membrane protein/mutarotase superfamily protein, YphB family
RA	2,673,791	A→C	6.0%	intergenic (+23/+25)	yphA → / ← yphB	DoxX family inner membrane protein/mutarotase superfamily protein, YphB family
RA	2,673,797	T→G	6.1%	intergenic (+29/+19)	yphA → / ← yphB	DoxX family inner membrane protein/mutarotase superfamily protein, YphB family
RA	2,673,798	T→C	6.0%	intergenic (+30/+18)	yphA → / ← yphB	DoxX family inner membrane protein/mutarotase superfamily protein, YphB family
RA	2,691,169	A→T	5.3%	noncoding (172/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,691,171	T→A	5.5%	noncoding (170/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,691,173	A→T	5.7%	noncoding (168/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,704,304	A→G	24.2%	intergenic (‑241/+31)	rnc ← / ← lepB	RNase III/leader peptidase (signal peptidase I)
RA	2,704,306	A→T	23.5%	intergenic (‑243/+29)	rnc ← / ← lepB	RNase III/leader peptidase (signal peptidase I)
RA	2,704,308	C→T	24.2%	intergenic (‑245/+27)	rnc ← / ← lepB	RNase III/leader peptidase (signal peptidase I)
RA	2,706,121:1	+T	10.5%	coding (1004/1800 nt)	lepA ←	back‑translocating elongation factor EF4, GTPase
RA	2,706,134	Δ1 bp	5.9%	coding (991/1800 nt)	lepA ←	back‑translocating elongation factor EF4, GTPase
RA	2,706,606	G→T	10.2%	L173L (CTC→CTA) ‡	lepA ←	back‑translocating elongation factor EF4, GTPase
RA	2,706,607	A→C	10.2%	L173R (CTC→CGC) ‡	lepA ←	back‑translocating elongation factor EF4, GTPase
RA	2,707,320	A→T	11.8%	intergenic (‑196/+2)	lepA ← / ← rseC	back‑translocating elongation factor EF4, GTPase/SoxR iron‑sulfur cluster reduction factor component
RA	2,707,321	A→T	11.8%	intergenic (‑197/+1)	lepA ← / ← rseC	back‑translocating elongation factor EF4, GTPase/SoxR iron‑sulfur cluster reduction factor component
RA	2,716,030	T→G	9.9%	intergenic (+20/+36)	eamB → / ← grcA	cysteine and O‑acetylserine exporter/autonomous glycyl radical cofactor
RA	2,716,033	C→A	10.0%	intergenic (+23/+33)	eamB → / ← grcA	cysteine and O‑acetylserine exporter/autonomous glycyl radical cofactor
RA	2,724,095	C→A	9.9%	intergenic (+13/‑33)	pssA → / → yfiM	phosphatidylserine synthase; CDP‑diacylglycerol‑serine O‑phosphatidyltransferase/putative lipoprotein
RA	2,724,097	T→A	9.8%	intergenic (+15/‑31)	pssA → / → yfiM	phosphatidylserine synthase; CDP‑diacylglycerol‑serine O‑phosphatidyltransferase/putative lipoprotein
RA	2,724,099	T→G	10.0%	intergenic (+17/‑29)	pssA → / → yfiM	phosphatidylserine synthase; CDP‑diacylglycerol‑serine O‑phosphatidyltransferase/putative lipoprotein
RA	2,731,073	A→T	6.8%	noncoding (85/1542 nt)	rrsG ←	16S ribosomal RNA of rrnG operon
RA	2,731,074	A→T	6.6%	noncoding (84/1542 nt)	rrsG ←	16S ribosomal RNA of rrnG operon
RA	2,737,703	A→G	5.7%	intergenic (+57/‑42)	pheL → / → pheA	pheA gene leader peptide/chorismate mutase and prephenate dehydratase, P‑protein
RA	2,737,705	A→T	5.7%	intergenic (+59/‑40)	pheL → / → pheA	pheA gene leader peptide/chorismate mutase and prephenate dehydratase, P‑protein
RA	2,737,707	C→T	5.4%	intergenic (+61/‑38)	pheL → / → pheA	pheA gene leader peptide/chorismate mutase and prephenate dehydratase, P‑protein
RA	2,737,711	G→A	5.9%	intergenic (+65/‑34)	pheL → / → pheA	pheA gene leader peptide/chorismate mutase and prephenate dehydratase, P‑protein
RA	2,750,073	G→T	8.4%	intergenic (+13/+42)	yfjD → / ← grpE	UPF0053 family inner membrane protein/heat shock protein
RA	2,750,078	T→G	8.6%	intergenic (+18/+37)	yfjD → / ← grpE	UPF0053 family inner membrane protein/heat shock protein
RA	2,750,081	C→A	9.1%	intergenic (+21/+34)	yfjD → / ← grpE	UPF0053 family inner membrane protein/heat shock protein
RA	2,750,086	A→C	8.9%	intergenic (+26/+29)	yfjD → / ← grpE	UPF0053 family inner membrane protein/heat shock protein
RA	2,753,986	A→T	9.8%	intergenic (+40/+22)	bamE → / ← ratB	lipoprotein component of BamABCDE OM biogenesis complex/UPF0125 family protein
RA	2,761,620	T→G	12.5%	K641Q (AAG→CAG)	yfjK ←	radiation resistance protein; DEAD/H helicase‑like protein; CP4‑57 putative defective prophage
RA	2,761,623	C→A	12.4%	V640L (GTA→TTA)	yfjK ←	radiation resistance protein; DEAD/H helicase‑like protein; CP4‑57 putative defective prophage
RA	2,767,667	T→G	9.8%	intergenic (+312/‑43)	rnlB → / → yfjP	CP4‑57 prophage; uncharacterized protein/CP4‑57 prophage; 50S ribosome‑binding GTPase family protein
RA	2,767,670	C→A	9.8%	intergenic (+315/‑40)	rnlB → / → yfjP	CP4‑57 prophage; uncharacterized protein/CP4‑57 prophage; 50S ribosome‑binding GTPase family protein
RA	2,771,180	G→T	5.0%	L11L (CTG→CTT)	yfjT →	CP4‑57 prophage; putative periplasmic protein
RA	2,791,747:1	+A	5.1%	coding (475/1449 nt)	gabD →	succinate‑semialdehyde dehydrogenase I, NADP‑dependent
RA	2,800,515	C→A	14.3%	intergenic (+40/‑208)	ygaM → / → nrdH	putative membrane‑anchored DUF883 family ribosome‑binding protein/hydrogen donor for NrdEF electron transport system; glutaredoxin‑like protein
RA	2,800,517	T→A	13.8%	intergenic (+42/‑206)	ygaM → / → nrdH	putative membrane‑anchored DUF883 family ribosome‑binding protein/hydrogen donor for NrdEF electron transport system; glutaredoxin‑like protein
RA	2,800,519	T→G	13.8%	intergenic (+44/‑204)	ygaM → / → nrdH	putative membrane‑anchored DUF883 family ribosome‑binding protein/hydrogen donor for NrdEF electron transport system; glutaredoxin‑like protein
RA	2,801,056	A→T	8.6%	N31I (AAT→ATT)	nrdI →	NrdEF cluster assembly flavodoxin
RA	2,807,091	T→C	6.7%	intergenic (+17/‑41)	proW → / → proX	glycine betaine/proline ABC transporter permease/glycine betaine/proline ABC transporter periplasmic binding protein; cold shock protein
RA	2,807,093	A→T	6.5%	intergenic (+19/‑39)	proW → / → proX	glycine betaine/proline ABC transporter permease/glycine betaine/proline ABC transporter periplasmic binding protein; cold shock protein
RA	2,807,095	G→A	6.8%	intergenic (+21/‑37)	proW → / → proX	glycine betaine/proline ABC transporter permease/glycine betaine/proline ABC transporter periplasmic binding protein; cold shock protein
RA	2,810,872	C→T	13.3%	H35Y (CAC→TAC) ‡	mprA →	transcriptional repressor of microcin B17 synthesis and multidrug efflux
RA	2,810,873	A→G	13.3%	H35R (CAC→CGC) ‡	mprA →	transcriptional repressor of microcin B17 synthesis and multidrug efflux
RA	2,814,174	T→A	14.7%	intergenic (+20/+44)	emrB → / ← luxS	multidrug efflux system protein/S‑ribosylhomocysteine lyase
RA	2,814,175	T→A	14.9%	intergenic (+21/+43)	emrB → / ← luxS	multidrug efflux system protein/S‑ribosylhomocysteine lyase
RA	2,814,860	A→G	13.7%	noncoding (59/78 nt)	micA →	sRNA antisense regulator of ompA, lamB, ompX, and phoP; Hfq‑dependent
RA	2,814,861	C→T	13.7%	noncoding (60/78 nt)	micA →	sRNA antisense regulator of ompA, lamB, ompX, and phoP; Hfq‑dependent
RA	2,818,393	A→T	5.2%	intergenic (‑119/+80)	argY ← / ← argV	tRNA‑Arg/tRNA‑Arg
RA	2,838,222	A→T	6.0%	intergenic (‑117/+32)	hydN ← / ← ascG	formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit/asc operon transcriptional repressor; prpBC operon repressor
RA	2,838,231	A→T	5.7%	intergenic (‑126/+23)	hydN ← / ← ascG	formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit/asc operon transcriptional repressor; prpBC operon repressor
RA	2,860,736	C→G	8.9%	D167H (GAT→CAT)	ygbI ←	DeoR family putative transcriptional regulator
RA	2,860,738	A→T	9.1%	I166N (ATT→AAT)	ygbI ←	DeoR family putative transcriptional regulator
RA	2,860,740	C→G	9.5%	M165I (ATG→ATC)	ygbI ←	DeoR family putative transcriptional regulator
RA	2,866,487	G→C	15.2%	intergenic (+22/+72)	ygbN → / ← rpoS	putative transporter/RNA polymerase, sigma S (sigma 38) factor
RA	2,866,488	G→C	15.1%	intergenic (+23/+71)	ygbN → / ← rpoS	putative transporter/RNA polymerase, sigma S (sigma 38) factor
RA	2,906,502	T→A	7.9%	G264G (GGT→GGA)	ygcG →	TPM domain protein, putative phosphatase
RA	2,906,503	T→A	8.0%	S265T (TCC→ACC)	ygcG →	TPM domain protein, putative phosphatase
RA	2,907,998	A→T	8.8%	intergenic (‑57/+31)	eno ← / ← pyrG	enolase/CTP synthetase
RA	2,917,895	G→A	5.8%	intergenic (+82/+150)	barA → / ← gudD	hybrid sensory histidine kinase, in two‑component regulatory system with UvrY/D‑glucarate dehydratase 1
RA	2,917,896	C→A	5.8%	intergenic (+83/+149)	barA → / ← gudD	hybrid sensory histidine kinase, in two‑component regulatory system with UvrY/D‑glucarate dehydratase 1
RA	2,951,465	T→C	6.5%	T333A (ACG→GCG)	recD ←	exonuclease V (RecBCD complex), alpha chain
RA	2,951,471	G→A	9.1%	R331C (CGC→TGC)	recD ←	exonuclease V (RecBCD complex), alpha chain
RA	2,951,475	T→A	8.9%	L329L (CTA→CTT)	recD ←	exonuclease V (RecBCD complex), alpha chain
RA	2,951,479	T→C	6.8%	Q328R (CAG→CGG)	recD ←	exonuclease V (RecBCD complex), alpha chain
RA	2,976,320	T→G	6.5%	noncoding (66/82 nt)	omrB ←	sRNA antisense regulator downregulates OM proteins and curli; positively regulated by OmpR/EnvZ, Hfq‑dependent
RA	2,976,321	C→A	6.6%	noncoding (65/82 nt)	omrB ←	sRNA antisense regulator downregulates OM proteins and curli; positively regulated by OmpR/EnvZ, Hfq‑dependent
RA	2,976,754	T→G	6.3%	R52R (CGT→CGG)	galR →	galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor
RA	2,976,758	C→T	6.4%	L54L (CTG→TTG)	galR →	galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor
RA	3,012,938	T→A	5.9%	R434R (CGA→CGT)	yqeB ←	XdhC‑CoxI family protein with NAD(P)‑binding Rossman fold
RA	3,020,510	G→T	6.7%	intergenic (+21/‑30)	ssnA → / → ygfM	putative chlorohydrolase/aminohydrolase/putative oxidoreductase
RA	3,020,511	C→G	6.7%	intergenic (+22/‑29)	ssnA → / → ygfM	putative chlorohydrolase/aminohydrolase/putative oxidoreductase
RA	3,020,512	A→C	6.9%	intergenic (+23/‑28)	ssnA → / → ygfM	putative chlorohydrolase/aminohydrolase/putative oxidoreductase
RA	3,035,479	G→A	5.9%	T268I (ACC→ATC) ‡	prfB ←	peptide chain release factor RF‑2
RA	3,035,480	T→C	5.9%	T268A (ACC→GCC) ‡	prfB ←	peptide chain release factor RF‑2
RA	3,052,886	C→G	5.9%	A211A (GCG→GCC)	ubiH ←	2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding
RA	3,052,890	A→C	6.2%	L210R (CTG→CGG)	ubiH ←	2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding
RA	3,052,893	G→T	6.5%	P209Q (CCG→CAG)	ubiH ←	2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding
RA	3,052,897	C→G	6.5%	G208R (GGC→CGC)	ubiH ←	2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding
RA	3,057,140	A→G	6.4%	intergenic (+152/+38)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,057,145	G→C	6.5%	intergenic (+157/+33)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,057,150	C→T	7.1%	intergenic (+162/+28)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,059,703	A→T	5.9%	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	5.9%	intergenic (‑3/‑49)	yqfE ← / → argP	pseudogene, LysR family/transcriptional regulator for arginine transport and DNA replication genes; replication initiation inhibitor
RA	3,061,036	C→A	5.6%	P63T (CCG→ACG)	scpA →	methylmalonyl‑CoA mutase
RA	3,061,817	G→C	6.2%	W323S (TGG→TCG) ‡	scpA →	methylmalonyl‑CoA mutase
RA	3,061,818	G→C	6.2%	W323C (TGG→TGC) ‡	scpA →	methylmalonyl‑CoA mutase
RA	3,068,927	T→C	5.6%	intergenic (‑119/+20)	argO ← / ← mscS	arginine transporter/mechanosensitive channel protein, small conductance
RA	3,078,186	C→T	7.4%	G225D (GGC→GAC)	cmtA ←	putative mannitol‑specific PTS IIB and IIC components
RA	3,078,191	A→G	7.0%	G223G (GGT→GGC)	cmtA ←	putative mannitol‑specific PTS IIB and IIC components
RA	3,090,226	T→C	7.3%	C158R (TGC→CGC)	yggI →	Zn‑dependent metalloprotease‑related protein
RA	3,090,229	G→A	6.6%	G159S (GGT→AGT)	yggI →	Zn‑dependent metalloprotease‑related protein
RA	3,092,774:1	+A	12.1%	coding (897/951 nt)	gshB →	glutathione synthetase
RA	3,092,779	Δ1 bp	11.6%	coding (902/951 nt)	gshB →	glutathione synthetase
RA	3,101,541	G→C	16.2%	P28R (CCG→CGG)	yggN ←	DUF2884 family putative periplasmic protein
RA	3,131,524	A→G	8.6%	S295S (AGT→AGC) ‡	yghQ ←	putative inner membrane polysaccharide flippase
RA	3,131,525	C→T	8.2%	S295N (AGT→AAT) ‡	yghQ ←	putative inner membrane polysaccharide flippase
RA	3,139,632	A→G	7.1%	intergenic (+39/+84)	yghU → / ← hybG	putative S‑transferase/hydrogenase 2 accessory protein
RA	3,139,633	A→C	6.6%	intergenic (+40/+83)	yghU → / ← hybG	putative S‑transferase/hydrogenase 2 accessory protein
RA	3,139,639	T→G	6.7%	intergenic (+46/+77)	yghU → / ← hybG	putative S‑transferase/hydrogenase 2 accessory protein
RA	3,139,640	C→A	6.7%	intergenic (+47/+76)	yghU → / ← hybG	putative S‑transferase/hydrogenase 2 accessory protein
RA	3,140,351	C→T	10.3%	R150H (CGC→CAC) ‡	hybE ←	hydrogenase 2‑specific chaperone
RA	3,140,352	G→C	10.3%	R150G (CGC→GGC) ‡	hybE ←	hydrogenase 2‑specific chaperone
RA	3,140,353	A→G	10.2%	R149R (CGT→CGC)	hybE ←	hydrogenase 2‑specific chaperone
RA	3,156,590	C→A	14.6%	intergenic (+72/‑33)	yqhD → / → dkgA	aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A
RA	3,156,591	T→G	14.6%	intergenic (+73/‑32)	yqhD → / → dkgA	aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A
RA	3,169,260	Δ1 bp	6.5%	intergenic (‑29/+24)	ygiV ← / ← ygiW	transcriptional repressor for mcbR biofilm gene/hydrogen peroxide and cadmium resistance periplasmic protein; stress‑induced OB‑fold protein
RA	3,169,265:1	+T	6.5%	intergenic (‑34/+19)	ygiV ← / ← ygiW	transcriptional repressor for mcbR biofilm gene/hydrogen peroxide and cadmium resistance periplasmic protein; stress‑induced OB‑fold protein
RA	3,171,852	C→T	6.9%	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	7.0%	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	7.0%	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	8.4%	intergenic (+30/+16)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,180,497	Δ1 bp	6.6%	coding (77/1161 nt)	ygiC →	ATP‑Grasp family ATPase
RA	3,180,505	G→T	12.5%	E29* (GAG→TAG) ‡	ygiC →	ATP‑Grasp family ATPase
RA	3,180,506	A→C	12.5%	E29A (GAG→GCG) ‡	ygiC →	ATP‑Grasp family ATPase
RA	3,180,513:1	+A	8.3%	coding (93/1161 nt)	ygiC →	ATP‑Grasp family ATPase
RA	3,183,345:1	+T	7.2%	intergenic (+22/+468)	zupT → / ← ribB	zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase
RA	3,183,350	Δ1 bp	7.1%	intergenic (+27/+463)	zupT → / ← ribB	zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase
RA	3,206,172	T→C	11.9%	T29A (ACG→GCG)	ttdR ←	transcriptional activator of ttdABT
RA	3,206,176	C→A	11.9%	A27A (GCG→GCT)	ttdR ←	transcriptional activator of ttdABT
RA	3,206,179	T→G	11.5%	A26A (GCA→GCC)	ttdR ←	transcriptional activator of ttdABT
RA	3,206,183	G→A	11.6%	A25V (GCC→GTC)	ttdR ←	transcriptional activator of ttdABT
RA	3,208,201	G→A	9.8%	V60M (GTG→ATG)	ttdT →	L‑tartrate/succinate antiporte
RA	3,208,205	G→A	9.5%	G61D (GGT→GAT)	ttdT →	L‑tartrate/succinate antiporte
RA	3,208,210	T→C	9.8%	S63P (TCC→CCC)	ttdT →	L‑tartrate/succinate antiporte
RA	3,288,032	C→A	14.6%	intergenic (+22/‑58)	yraH → / → yraI	putative fimbrial‑like adhesin protein/putative periplasmic pilin chaperone
RA	3,288,033	T→G	14.5%	intergenic (+23/‑57)	yraH → / → yraI	putative fimbrial‑like adhesin protein/putative periplasmic pilin chaperone
RA	3,291,109	A→T	6.8%	K766* (AAA→TAA) ‡	yraJ →	putative outer membrane protein
RA	3,291,110	A→T	6.9%	K766I (AAA→ATA) ‡	yraJ →	putative outer membrane protein
RA	3,309,009	C→T	5.4%	intergenic (‑85/+24)	nlpI ← / ← pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase
RA	3,309,012	A→G	6.8%	intergenic (‑88/+21)	nlpI ← / ← pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase
RA	3,313,207	G→A	10.8%	intergenic (‑29/+135)	rbfA ← / ← infB	30s ribosome binding factor/translation initiation factor IF‑2
RA	3,313,208	T→A	10.9%	intergenic (‑30/+134)	rbfA ← / ← infB	30s ribosome binding factor/translation initiation factor IF‑2
RA	3,313,209	T→C	11.0%	intergenic (‑31/+133)	rbfA ← / ← infB	30s ribosome binding factor/translation initiation factor IF‑2
RA	3,328,182	A→T	9.0%	intergenic (+99/+57)	yhbY → / ← greA	RNA binding protein associated with pre‑50S ribosomal subunits/transcript cleavage factor
RA	3,328,183	T→A	8.8%	intergenic (+100/+56)	yhbY → / ← greA	RNA binding protein associated with pre‑50S ribosomal subunits/transcript cleavage factor
RA	3,328,184	A→T	8.9%	intergenic (+101/+55)	yhbY → / ← greA	RNA binding protein associated with pre‑50S ribosomal subunits/transcript cleavage factor
RA	3,334,703	A→G	9.3%	intergenic (+22/‑206)	ispB → / → sfsB	octaprenyl diphosphate synthase/malPQ operon transcriptional activator
RA	3,334,704	G→C	9.5%	intergenic (+23/‑205)	ispB → / → sfsB	octaprenyl diphosphate synthase/malPQ operon transcriptional activator
RA	3,334,705	C→T	9.6%	intergenic (+24/‑204)	ispB → / → sfsB	octaprenyl diphosphate synthase/malPQ operon transcriptional activator
RA	3,349,162	C→T	6.7%	V216V (GTG→GTA) ‡	mtgA ←	biosynthetic peptidoglycan transglycosylase
RA	3,349,163	A→G	6.7%	V216A (GTG→GCG) ‡	mtgA ←	biosynthetic peptidoglycan transglycosylase
RA	3,377,768	C→T	7.0%	intergenic (‑348/+47)	sspA ← / ← rpsI	stringent starvation protein A, phage P1 late gene activator, RNAP‑associated acid‑resistance protein, inactive glutathione S‑transferase homolog/30S ribosomal subunit protein S9
RA	3,377,769	G→T	6.7%	intergenic (‑349/+46)	sspA ← / ← rpsI	stringent starvation protein A, phage P1 late gene activator, RNAP‑associated acid‑resistance protein, inactive glutathione S‑transferase homolog/30S ribosomal subunit protein S9
RA	3,377,770	A→C	6.2%	intergenic (‑350/+45)	sspA ← / ← rpsI	stringent starvation protein A, phage P1 late gene activator, RNAP‑associated acid‑resistance protein, inactive glutathione S‑transferase homolog/30S ribosomal subunit protein S9
RA	3,377,771	A→G	6.9%	intergenic (‑351/+44)	sspA ← / ← rpsI	stringent starvation protein A, phage P1 late gene activator, RNAP‑associated acid‑resistance protein, inactive glutathione S‑transferase homolog/30S ribosomal subunit protein S9
RA	3,387,553	T→A	6.8%	R212R (CGA→CGT)	aaeB ←	p‑hydroxybenzoic acid efflux system component
RA	3,396,961	C→A	6.1%	A279S (GCG→TCG)	rng ←	ribonuclease G
RA	3,396,962	T→G	6.2%	R278R (CGA→CGC)	rng ←	ribonuclease G
RA	3,407,293	T→A	11.1%	intergenic (+27/‑82)	accC → / → yhdT	acetyl‑CoA carboxylase, biotin carboxylase subunit/DUF997 family putative inner membrane protein
RA	3,407,294	T→A	11.1%	intergenic (+28/‑81)	accC → / → yhdT	acetyl‑CoA carboxylase, biotin carboxylase subunit/DUF997 family putative inner membrane protein
RA	3,407,295	T→A	11.1%	intergenic (+29/‑80)	accC → / → yhdT	acetyl‑CoA carboxylase, biotin carboxylase subunit/DUF997 family putative inner membrane protein
RA	3,419,071	T→G	7.3%	pseudogene (30/66 nt)	yhdW →	pseudogene, ABC transporter periplasmic binding protein family;putative transport; Not classified; putative periplasmic binding transport protein; periplasmic‑binding component of ABC superfamily
RA	3,419,074	C→A	7.3%	pseudogene (33/66 nt)	yhdW →	pseudogene, ABC transporter periplasmic binding protein family;putative transport; Not classified; putative periplasmic binding transport protein; periplasmic‑binding component of ABC superfamily
RA	3,423,620	A→G	7.5%	noncoding (36/76 nt)	thrV ←	tRNA‑Thr
RA	3,423,621	C→G	7.7%	noncoding (35/76 nt)	thrV ←	tRNA‑Thr
RA	3,423,622	C→T	7.7%	noncoding (34/76 nt)	thrV ←	tRNA‑Thr
RA	3,439,588	G→C	14.3%	intergenic (‑79/+28)	yhdN ← / ← rplQ	DUF1992 family protein/50S ribosomal subunit protein L17
RA	3,439,589	G→C	13.3%	intergenic (‑80/+27)	yhdN ← / ← rplQ	DUF1992 family protein/50S ribosomal subunit protein L17
RA	3,471,357	C→T	6.4%	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	6.4%	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	6.2%	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	9.3%	intergenic (‑37/+34)	tufA ← / ← fusA	translation elongation factor EF‑Tu 1/protein chain elongation factor EF‑G, GTP‑binding
RA	3,477,878	T→A	8.5%	intergenic (+20/+29)	slyX → / ← slyD	phi X174 lysis protein/FKBP‑type peptidyl prolyl cis‑trans isomerase (rotamase)
RA	3,486,776	T→A	5.4%	intergenic (+24/‑15)	crp → / → yhfK	cAMP‑activated global transcription factor, mediator of catabolite repression/putative transporter, FUSC superfamily inner membrane protein
RA	3,486,781	G→A	5.7%	intergenic (+29/‑10)	crp → / → yhfK	cAMP‑activated global transcription factor, mediator of catabolite repression/putative transporter, FUSC superfamily inner membrane protein
RA	3,491,704	G→T	6.6%	intergenic (‑84/+21)	yhfG ← / ← ppiA	putative antitoxin for Fic/peptidyl‑prolyl cis‑trans isomerase A (rotamase A)
RA	3,491,705	A→C	6.6%	intergenic (‑85/+20)	yhfG ← / ← ppiA	putative antitoxin for Fic/peptidyl‑prolyl cis‑trans isomerase A (rotamase A)
RA	3,560,455:1	+G	100%	intergenic (‑2/+1)	glpR ← / ← glpR	pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon
RA	3,566,210	A→T	6.1%	G124G (GGT→GGA) ‡	glgP ←	glycogen phosphorylase
RA	3,566,212	C→G	6.0%	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	3,587,224	A→T	7.4%	Q94H (CAA→CAT)	yhhA →	DUF2756 family protein
RA	3,587,225	A→T	7.4%	M95L (ATG→TTG)	yhhA →	DUF2756 family protein
RA	3,608,689	G→T	7.0%	intergenic (+40/+62)	zntA → / ← tusA	zinc, cobalt and lead efflux system/mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase
RA	3,608,694	T→A	7.3%	intergenic (+45/+57)	zntA → / ← tusA	zinc, cobalt and lead efflux system/mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase
RA	3,608,695	C→G	9.2%	intergenic (+46/+56)	zntA → / ← tusA	zinc, cobalt and lead efflux system/mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase
RA	3,608,701	A→C	8.7%	intergenic (+52/+50)	zntA → / ← tusA	zinc, cobalt and lead efflux system/mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase
RA	3,630,848	G→C	7.4%	intergenic (‑246/+120)	yhiI ← / ← yhiJ	putative membrane fusion protein (MFP) of efflux pump/DUF4049 family protein
RA	3,630,855	T→A	7.3%	intergenic (‑253/+113)	yhiI ← / ← yhiJ	putative membrane fusion protein (MFP) of efflux pump/DUF4049 family protein
RA	3,630,857	C→A	7.4%	intergenic (‑255/+111)	yhiI ← / ← yhiJ	putative membrane fusion protein (MFP) of efflux pump/DUF4049 family protein
RA	3,630,858	T→G	6.7%	intergenic (‑256/+110)	yhiI ← / ← yhiJ	putative membrane fusion protein (MFP) of efflux pump/DUF4049 family protein
RA	3,630,860	T→A	7.1%	intergenic (‑258/+108)	yhiI ← / ← yhiJ	putative membrane fusion protein (MFP) of efflux pump/DUF4049 family protein
RA	3,636,747	T→C	6.7%	T222A (ACC→GCC)	yhiN ←	putative oxidoreductase
RA	3,636,748	G→A	6.7%	G221G (GGC→GGT)	yhiN ←	putative oxidoreductase
RA	3,642,358	T→A	7.7%	intergenic (+27/+22)	dtpB → / ← rsmJ	dipeptide and tripeptide permease B/16S rRNA m(2)G1516 methyltransferase, SAM‑dependent
RA	3,642,361	T→A	7.7%	intergenic (+30/+19)	dtpB → / ← rsmJ	dipeptide and tripeptide permease B/16S rRNA m(2)G1516 methyltransferase, SAM‑dependent
RA	3,657,599	T→A	12.3%	intergenic (+32/+387)	hdeD → / ← arrS	acid‑resistance membrane protein/antisense sRNA ArrS, function unknown
RA	3,657,601	G→C	12.3%	intergenic (+34/+385)	hdeD → / ← arrS	acid‑resistance membrane protein/antisense sRNA ArrS, function unknown
RA	3,657,603	T→A	12.7%	intergenic (+36/+383)	hdeD → / ← arrS	acid‑resistance membrane protein/antisense sRNA ArrS, function unknown
RA	3,714,163:1	+T	5.8%	coding (2232/2334 nt)	bisC ←	biotin sulfoxide reductase
RA	3,714,168	Δ1 bp	5.8%	coding (2227/2334 nt)	bisC ←	biotin sulfoxide reductase
RA	3,716,507	A→G	7.4%	intergenic (‑113/‑40)	bisC ← / → yiaD	biotin sulfoxide reductase/multicopy suppressor of bamB; outer membrane lipoprotein
RA	3,716,508	A→T	7.4%	intergenic (‑114/‑39)	bisC ← / → yiaD	biotin sulfoxide reductase/multicopy suppressor of bamB; outer membrane lipoprotein
RA	3,716,509	C→T	7.6%	intergenic (‑115/‑38)	bisC ← / → yiaD	biotin sulfoxide reductase/multicopy suppressor of bamB; outer membrane lipoprotein
RA	3,720,294	T→C	13.7%	intergenic (+33/+154)	cspA → / ← hokA	RNA chaperone and antiterminator, cold‑inducible/toxic polypeptide, small
RA	3,720,299	T→A	13.5%	intergenic (+38/+149)	cspA → / ← hokA	RNA chaperone and antiterminator, cold‑inducible/toxic polypeptide, small
RA	3,720,300	T→A	13.5%	intergenic (+39/+148)	cspA → / ← hokA	RNA chaperone and antiterminator, cold‑inducible/toxic polypeptide, small
RA	3,720,305	G→A	12.2%	intergenic (+44/+143)	cspA → / ← hokA	RNA chaperone and antiterminator, cold‑inducible/toxic polypeptide, small
RA	3,722,300	G→T	8.0%	intergenic (+195/+28)	sokA → / ← glyS	pseudogene, sRNA antisense regulator blocking mokA/hokA translation/glycine tRNA synthetase, beta subunit
RA	3,722,301	A→C	7.9%	intergenic (+196/+27)	sokA → / ← glyS	pseudogene, sRNA antisense regulator blocking mokA/hokA translation/glycine tRNA synthetase, beta subunit
RA	3,729,405	C→G	5.5%	intergenic (‑34/+38)	xylB ← / ← xylA	xylulokinase/D‑xylose isomerase
RA	3,774,207	C→T	11.2%	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	11.4%	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	11.6%	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	9.8%	intergenic (+28/‑202)	mtlA → / → mtlD	mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent
RA	3,778,876	G→A	5.7%	G493D (GGC→GAC)	lldP →	L‑lactate permease
RA	3,778,879	T→C	5.6%	V494A (GTC→GCC)	lldP →	L‑lactate permease
RA	3,781,051	C→G	15.4%	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	10.1%	intergenic (‑219/+20)	waaH ← / ← tdh	LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding
RA	3,790,303	A→T	9.9%	intergenic (‑222/+17)	waaH ← / ← tdh	LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding
RA	3,798,234	A→T	6.1%	intergenic (+27/+5)	waaL → / ← waaU	O‑antigen ligase/lipopolysaccharide core biosynthesis
RA	3,798,235	A→T	6.1%	intergenic (+28/+4)	waaL → / ← waaU	O‑antigen ligase/lipopolysaccharide core biosynthesis
RA	3,810,321	T→C	5.5%	intergenic (+17/+22)	coaD → / ← mutM	pantetheine‑phosphate adenylyltransferase/formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase
RA	3,814,164	G→A	7.1%	G78D (GGT→GAT)	dut →	deoxyuridinetriphosphatase
RA	3,814,167	T→C	7.1%	I79T (ATC→ACC)	dut →	deoxyuridinetriphosphatase
RA	3,815,816	C→G	7.0%	intergenic (‑48/+18)	pyrE ← / ← rph	orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
RA	3,815,819	C→G	7.0%	intergenic (‑51/+15)	pyrE ← / ← rph	orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
RA	3,817,948	G→T	5.8%	E63D (GAG→GAT)	dinD →	DNA damage‑inducible protein
RA	3,817,949	A→C	5.5%	I64L (ATC→CTC)	dinD →	DNA damage‑inducible protein
RA	3,877,558	G→C	27.0%	intergenic (‑93/+147)	yidB ← / ← gyrB	DUF937 family protein/DNA gyrase, subunit B
RA	3,888,212	Δ1 bp	15.9%	intergenic (+20/‑223)	mnmE → / → tnaC	tRNA U34 5‑methylaminomethyl‑2‑thiouridine modification GTPase/tryptophanase leader peptide
RA	3,888,219	T→A	20.0%	intergenic (+27/‑216)	mnmE → / → tnaC	tRNA U34 5‑methylaminomethyl‑2‑thiouridine modification GTPase/tryptophanase leader peptide
RA	3,888,224:1	+A	19.0%	intergenic (+32/‑211)	mnmE → / → tnaC	tRNA U34 5‑methylaminomethyl‑2‑thiouridine modification GTPase/tryptophanase leader peptide
RA	3,891,502	C→G	16.1%	intergenic (+19/‑113)	tnaB → / → mdtL	tryptophan transporter of low affinity/multidrug efflux system protein
RA	3,891,504	T→A	16.5%	intergenic (+21/‑111)	tnaB → / → mdtL	tryptophan transporter of low affinity/multidrug efflux system protein
RA	3,891,506	C→G	15.6%	intergenic (+23/‑109)	tnaB → / → mdtL	tryptophan transporter of low affinity/multidrug efflux system protein
RA	3,900,542	A→T	7.9%	I12I (ATT→ATA)	yieL ←	putative xylanase
RA	3,900,545	A→T	7.6%	A11A (GCT→GCA)	yieL ←	putative xylanase
RA	3,920,796	T→C	5.1%	A31A (GCA→GCG)	atpF ←	F0 sector of membrane‑bound ATP synthase, subunit b
RA	3,920,809	G→A	5.6%	P27L (CCG→CTG)	atpF ←	F0 sector of membrane‑bound ATP synthase, subunit b
RA	3,938,255	T→A	5.3%	L10Q (CTG→CAG)	rbsR →	transcriptional repressor of ribose metabolism
RA	3,947,332	A→T	6.7%	A212A (GCT→GCA)	hdfR ←	flhDC operon transcriptional repressor
RA	3,947,335	A→T	6.7%	S211S (TCT→TCA)	hdfR ←	flhDC operon transcriptional repressor
RA	3,959,501	T→G	5.3%	intergenic (+56/+31)	ilvC → / ← ppiC	ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C)
RA	3,959,515	T→A	13.7%	intergenic (+70/+17)	ilvC → / ← ppiC	ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C)
RA	3,959,924	A→T	7.2%	intergenic (‑111/+88)	ppiC ← / ← yifN	peptidyl‑prolyl cis‑trans isomerase C (rotamase C)/PemK toxin family pseudogene
RA	3,959,925	A→T	7.2%	intergenic (‑112/+87)	ppiC ← / ← yifN	peptidyl‑prolyl cis‑trans isomerase C (rotamase C)/PemK toxin family pseudogene
RA	3,959,926	A→T	7.0%	intergenic (‑113/+86)	ppiC ← / ← yifN	peptidyl‑prolyl cis‑trans isomerase C (rotamase C)/PemK toxin family pseudogene
RA	3,970,813	Δ1 bp	6.1%	coding (681/1131 nt)	wecB →	UDP‑N‑acetyl glucosamine‑2‑epimerase
RA	3,970,817:1	+G	6.1%	coding (685/1131 nt)	wecB →	UDP‑N‑acetyl glucosamine‑2‑epimerase
RA	3,971,996	T→A	5.6%	L246Q (CTG→CAG)	wecC →	UDP‑N‑acetyl‑D‑mannosaminuronic acid dehydrogenase
RA	3,991,334	T→A	8.4%	I61N (ATT→AAT) ‡	cyaA →	adenylate cyclase
RA	3,991,335	T→A	8.4%	I61I (ATT→ATA) ‡	cyaA →	adenylate cyclase
JC	3,993,564	Δ9 bp	100%	coding (2412‑2420/2547 nt)	cyaA →	adenylate cyclase
RA	4,009,002	G→T	5.9%	P20T (CCA→ACA)	rhtB ←	homoserine, homoserine lactone and S‑methyl‑methionine efflux pump
RA	4,009,005	A→C	5.9%	S19A (TCG→GCG)	rhtB ←	homoserine, homoserine lactone and S‑methyl‑methionine efflux pump
RA	4,017,216:1	+A	7.3%	intergenic (+24/‑117)	udp → / → rmuC	uridine phosphorylase/DNA recombination protein
RA	4,017,222	Δ1 bp	7.2%	intergenic (+30/‑111)	udp → / → rmuC	uridine phosphorylase/DNA recombination protein
RA	4,022,007	C→T	9.4%	G21G (GGC→GGT)	tatA →	TatABCE protein translocation system subunit
RA	4,022,008	A→G	9.8%	T22A (ACC→GCC)	tatA →	TatABCE protein translocation system subunit
RA	4,041,216	T→C	5.9%	Q73R (CAG→CGG) ‡	mobB ←	molybdopterin‑guanine dinucleotide biosynthesis protein B
RA	4,041,217	G→A	5.9%	Q73* (CAG→TAG) ‡	mobB ←	molybdopterin‑guanine dinucleotide biosynthesis protein B
RA	4,041,220	T→C	5.9%	S72G (AGC→GGC)	mobB ←	molybdopterin‑guanine dinucleotide biosynthesis protein B
RA	4,041,221	G→A	5.9%	A71A (GCC→GCT)	mobB ←	molybdopterin‑guanine dinucleotide biosynthesis protein B
RA	4,049,986	G→T	10.0%	noncoding (88/109 nt)	spf →	Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent
RA	4,060,261	G→T	12.4%	intergenic (+31/‑186)	typA → / → yihL	GTP‑binding protein/putative DNA‑binding transcriptional regulator
RA	4,060,264	A→C	12.9%	intergenic (+34/‑183)	typA → / → yihL	GTP‑binding protein/putative DNA‑binding transcriptional regulator
RA	4,070,413	T→G	6.2%	intergenic (‑12/+102)	yihR ← / ← yihS	putative sulphoquinovose mutarotase/sulphoquinovose isomerase
RA	4,080,616	C→A	6.0%	G205C (GGC→TGC)	fdhE ←	formate dehydrogenase formation protein
RA	4,080,621	T→G	6.2%	Q203P (CAA→CCA)	fdhE ←	formate dehydrogenase formation protein
RA	4,082,696	G→C	7.1%	Q22E (CAG→GAG)	fdoH ←	formate dehydrogenase‑O, Fe‑S subunit
RA	4,088,091	G→C	15.5%	intergenic (+34/+16)	yiiG → / ← frvR	DUF3829 family lipoprotein/putative frv operon regulator; contains a PTS EIIA domain
RA	4,093,463	A→G	8.3%	S270S (AGT→AGC)	rhaD ←	rhamnulose‑1‑phosphate aldolase
RA	4,094,327	A→G	6.5%	intergenic (‑55/+396)	rhaD ← / ← rhaA	rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase
RA	4,094,328	A→C	6.5%	intergenic (‑56/+395)	rhaD ← / ← rhaA	rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase
RA	4,094,334	T→G	6.7%	intergenic (‑62/+389)	rhaD ← / ← rhaA	rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase
RA	4,094,335	C→A	6.7%	intergenic (‑63/+388)	rhaD ← / ← rhaA	rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase
RA	4,127,938	T→A	7.2%	intergenic (‑44/+140)	yiiX ← / ← metJ	putative lipid binding hydrolase, DUF830 family protein/transcriptional repressor, S‑adenosylmethionine‑binding
RA	4,127,941	T→A	7.2%	intergenic (‑47/+137)	yiiX ← / ← metJ	putative lipid binding hydrolase, DUF830 family protein/transcriptional repressor, S‑adenosylmethionine‑binding
RA	4,130,005	G→A	8.9%	L57L (TTG→TTA)	metL →	Bifunctional aspartokinase/homoserine dehydrogenase 2
RA	4,130,008	T→C	8.9%	I58I (ATT→ATC)	metL →	Bifunctional aspartokinase/homoserine dehydrogenase 2
RA	4,148,049	C→G	8.3%	G90A (GGC→GCC)	yijO ←	AraC family putative transcriptional activator
RA	4,177,171	T→A	7.2%	intergenic (+43/‑187)	tufB → / → secE	translation elongation factor EF‑Tu 2/preprotein translocase membrane subunit
RA	4,177,172	T→A	6.9%	intergenic (+44/‑186)	tufB → / → secE	translation elongation factor EF‑Tu 2/preprotein translocase membrane subunit
RA	4,189,525	C→G	7.6%	S1392R (AGC→AGG)	rpoC →	RNA polymerase, beta prime subunit
RA	4,193,185	G→C	7.1%	T131S (ACT→AGT)	thiF ←	adenylyltransferase, modifies ThiS C‑terminus
RA	4,227,550	G→A	7.2%	intergenic (+39/‑181)	metH → / → yjbB	homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent/putative Na+/Pi‑cotransporter
RA	4,227,555	A→T	6.5%	intergenic (+44/‑176)	metH → / → yjbB	homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent/putative Na+/Pi‑cotransporter
RA	4,227,560	T→C	6.3%	intergenic (+49/‑171)	metH → / → yjbB	homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent/putative Na+/Pi‑cotransporter
RA	4,245,108	T→G	5.2%	intergenic (‑33/+121)	malF ← / ← malE	maltose transporter subunit/maltose transporter subunit
RA	4,245,110	T→G	5.1%	intergenic (‑35/+119)	malF ← / ← malE	maltose transporter subunit/maltose transporter subunit
RA	4,245,111	C→A	5.1%	intergenic (‑36/+118)	malF ← / ← malE	maltose transporter subunit/maltose transporter subunit
RA	4,245,113	C→A	5.2%	intergenic (‑38/+116)	malF ← / ← malE	maltose transporter subunit/maltose transporter subunit
RA	4,262,250	G→C	7.6%	G194G (GGG→GGC)	dusA →	tRNA‑dihydrouridine synthase A
RA	4,262,255	G→C	7.7%	S196T (AGC→ACC)	dusA →	tRNA‑dihydrouridine synthase A
RA	4,263,217:2	+T	5.4%	intergenic (+135/+31)	pspG → / ← qorA	phage shock protein G/quinone oxidoreductase, NADPH‑dependent
RA	4,270,142	G→A	9.6%	intergenic (+15/‑96)	aphA → / → yjbQ	acid phosphatase/phosphotransferase, class B, non‑specific/thiamine phosphate synthase
RA	4,270,144	G→C	9.7%	intergenic (+17/‑94)	aphA → / → yjbQ	acid phosphatase/phosphotransferase, class B, non‑specific/thiamine phosphate synthase
RA	4,270,146	T→C	9.6%	intergenic (+19/‑92)	aphA → / → yjbQ	acid phosphatase/phosphotransferase, class B, non‑specific/thiamine phosphate synthase
RA	4,274,740	G→A	10.6%	intergenic (+79/+20)	ssb → / ← yjcB	single‑stranded DNA‑binding protein/putative inner membrane protein
RA	4,274,742	T→A	10.8%	intergenic (+81/+18)	ssb → / ← yjcB	single‑stranded DNA‑binding protein/putative inner membrane protein
RA	4,274,744	T→C	10.7%	intergenic (+83/+16)	ssb → / ← yjcB	single‑stranded DNA‑binding protein/putative inner membrane protein
RA	4,285,866	Δ1 bp	6.7%	coding (1506/1959 nt)	acs ←	acetyl‑CoA synthetase
RA	4,285,870:1	+G	6.8%	coding (1502/1959 nt)	acs ←	acetyl‑CoA synthetase
RA	4,291,512	G→A	11.4%	M1M (GTG→ATG) †‡	nrfE →	heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfE
RA	4,291,513	T→C	11.4%	M1A (GTG→GCG) †‡	nrfE →	heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfE
RA	4,296,060	C→T	19.4%	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	4,307,294	A→T	11.2%	L169Q (CTG→CAG)	alsK ←	D‑allose kinase
RA	4,307,298	G→A	12.7%	P168S (CCC→TCC)	alsK ←	D‑allose kinase
RA	4,312,080	G→C	6.9%	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	6.7%	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	7.1%	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	6.4%	intergenic (+30/+117)	yjdP → / ← phnP	putative periplasmic protein/5‑phospho‑alpha‑D‑ribosyl 1,2‑cyclic phosphate phosphodiesterase
RA	4,314,233	A→T	9.0%	intergenic (+36/+111)	yjdP → / ← phnP	putative periplasmic protein/5‑phospho‑alpha‑D‑ribosyl 1,2‑cyclic phosphate phosphodiesterase
RA	4,335,654	T→A	10.3%	intergenic (‑64/+40)	eptA ← / ← adiC	lipid A phosphoethanolamine transferase/arginine:agmatine antiporter
RA	4,335,655	T→A	10.3%	intergenic (‑65/+39)	eptA ← / ← adiC	lipid A phosphoethanolamine transferase/arginine:agmatine antiporter
RA	4,356,445	A→T	10.4%	intergenic (‑34/+25)	dtpC ← / ← cadA	dipeptide and tripeptide permease/lysine decarboxylase, acid‑inducible
RA	4,356,446	A→T	10.4%	intergenic (‑35/+24)	dtpC ← / ← cadA	dipeptide and tripeptide permease/lysine decarboxylase, acid‑inducible
RA	4,362,528	G→A	10.6%	intergenic (‑175/+23)	yjdQ ← / ← pheU	pseudogene, P4‑like integrase remnant/tRNA‑Phe
RA	4,362,529	T→C	10.3%	intergenic (‑176/+22)	yjdQ ← / ← pheU	pseudogene, P4‑like integrase remnant/tRNA‑Phe
RA	4,376,819	A→T	7.3%	intergenic (+120/‑56)	ecnB → / → sugE	entericidin B membrane lipoprotein/multidrug efflux system protein
RA	4,376,822	A→T	7.5%	intergenic (+123/‑53)	ecnB → / → sugE	entericidin B membrane lipoprotein/multidrug efflux system protein
RA	4,377,791	A→T	10.9%	intergenic (‑69/+20)	blc ← / ← ampC	outer membrane lipoprotein cell division and growth lipocalin/penicillin‑binding protein; beta‑lactamase, intrinsically weak
RA	4,377,792	A→T	11.0%	intergenic (‑70/+19)	blc ← / ← ampC	outer membrane lipoprotein cell division and growth lipocalin/penicillin‑binding protein; beta‑lactamase, intrinsically weak
RA	4,378,976	A→T	15.9%	intergenic (‑32/+31)	ampC ← / ← frdD	penicillin‑binding protein; beta‑lactamase, intrinsically weak/fumarate reductase (anaerobic), membrane anchor subunit
RA	4,378,977	T→A	15.2%	intergenic (‑33/+30)	ampC ← / ← frdD	penicillin‑binding protein; beta‑lactamase, intrinsically weak/fumarate reductase (anaerobic), membrane anchor subunit
RA	4,378,978	A→T	15.4%	intergenic (‑34/+29)	ampC ← / ← frdD	penicillin‑binding protein; beta‑lactamase, intrinsically weak/fumarate reductase (anaerobic), membrane anchor subunit
RA	4,424,465	G→T	8.4%	intergenic (+79/+51)	ulaF → / ← yjfY	L‑ribulose 5‑phosphate 4‑epimerase/YhcN family protein, periplasmic
RA	4,424,468	A→C	8.3%	intergenic (+82/+48)	ulaF → / ← yjfY	L‑ribulose 5‑phosphate 4‑epimerase/YhcN family protein, periplasmic
RA	4,426,592	T→A	9.8%	intergenic (+35/+36)	rplI → / ← yjfZ	50S ribosomal subunit protein L9/uncharacterized protein
RA	4,455,092	C→G	6.8%	C173S (TGC→TCC)	fbp ←	fructose‑1,6‑bisphosphatase I
RA	4,455,095	C→G	6.8%	G172A (GGA→GCA)	fbp ←	fructose‑1,6‑bisphosphatase I
RA	4,463,652	C→G	6.5%	G353A (GGC→GCC)	treC ←	trehalose‑6‑P hydrolase
RA	4,470,951	A→C	11.4%	intergenic (‑38/+35)	ridA ← / ← pyrI	enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit
RA	4,470,952	T→C	11.5%	intergenic (‑39/+34)	ridA ← / ← pyrI	enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit
RA	4,470,957	G→A	11.1%	intergenic (‑44/+29)	ridA ← / ← pyrI	enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit
RA	4,470,958	G→T	11.2%	intergenic (‑45/+28)	ridA ← / ← pyrI	enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit
RA	4,472,434	G→A	8.8%	R34* (CGA→TGA)	pyrL ←	pyrBI operon leader peptide
RA	4,472,437	T→C	9.2%	N33D (AAT→GAT)	pyrL ←	pyrBI operon leader peptide
RA	4,479,012	A→T	9.7%	intergenic (+123/+22)	rraB → / ← yjgM	protein inhibitor of RNase E/GNAT family putative N‑acetyltransferase
RA	4,479,016	G→C	10.4%	intergenic (+127/+18)	rraB → / ← yjgM	protein inhibitor of RNase E/GNAT family putative N‑acetyltransferase
RA	4,479,020	A→T	10.3%	intergenic (+131/+14)	rraB → / ← yjgM	protein inhibitor of RNase E/GNAT family putative N‑acetyltransferase
RA	4,496,511	A→G	7.4%	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	7.4%	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	4,498,222	A→T	7.7%	intergenic (+282/‑50)	intB → / → insC1	pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase/IS2 repressor TnpA
RA	4,498,223	A→T	7.6%	intergenic (+283/‑49)	intB → / → insC1	pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase/IS2 repressor TnpA
RA	4,512,350:1	+G	9.6%	coding (65/957 nt)	fecD ←	ferric citrate ABC transporter permease
RA	4,519,311	A→G	5.8%	intergenic (+87/+27)	insB1 → / ← yjhU	IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element
RA	4,519,313	C→A	5.7%	intergenic (+89/+25)	insB1 → / ← yjhU	IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element
RA	4,519,314	T→G	5.7%	intergenic (+90/+24)	insB1 → / ← yjhU	IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element
RA	4,519,316	C→T	5.8%	intergenic (+92/+22)	insB1 → / ← yjhU	IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element
RA	4,520,500	Δ1 bp	16.9%	intergenic (‑176/+171)	yjhU ← / ← yjhF	putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter
RA	4,520,504:1	+T	16.3%	intergenic (‑180/+167)	yjhU ← / ← yjhF	putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter
RA	4,548,400	G→A	6.9%	C39Y (TGT→TAT) ‡	fimG →	minor component of type 1 fimbriae
RA	4,548,401	T→C	6.9%	C39C (TGT→TGC) ‡	fimG →	minor component of type 1 fimbriae
RA	4,549,932	T→A	16.3%	intergenic (+222/+21)	fimH → / ← gntP	minor component of type 1 fimbriae/fructuronate transporter
RA	4,551,422	T→A	6.2%	intergenic (‑126/‑214)	gntP ← / → uxuA	fructuronate transporter/mannonate hydrolase
RA	4,573,188	G→A	5.1%	pseudogene (775/1503 nt)	yjiT →	pseudogene
RA	4,573,189	T→C	5.5%	pseudogene (776/1503 nt)	yjiT →	pseudogene
RA	4,608,604	C→G	5.4%	I140M (ATC→ATG)	rimI →	ribosomal‑protein‑S18‑alanine N‑acetyltransferase
RA	4,608,607	C→G	5.6%	I141M (ATC→ATG)	rimI →	ribosomal‑protein‑S18‑alanine N‑acetyltransferase
RA	4,612,329	A→G	9.7%	intergenic (+40/‑82)	ytjA → / → yjjU	uncharacterized protein/putative patatin‑like family phospholipase
RA	4,612,330	G→C	9.4%	intergenic (+41/‑81)	ytjA → / → yjjU	uncharacterized protein/putative patatin‑like family phospholipase
RA	4,612,331	C→T	9.4%	intergenic (+42/‑80)	ytjA → / → yjjU	uncharacterized protein/putative patatin‑like family phospholipase
RA	4,620,090	C→T	5.6%	T163I (ACC→ATC)	deoB →	phosphopentomutase
RA	4,620,095	A→T	6.1%	K165* (AAG→TAG) ‡	deoB →	phosphopentomutase
RA	4,620,096	A→T	6.0%	K165M (AAG→ATG) ‡	deoB →	phosphopentomutase
RA	4,620,101	A→G	6.1%	I167V (ATT→GTT)	deoB →	phosphopentomutase
RA	4,623,523	G→T	5.1%	Q199K (CAG→AAG)	lplA ←	lipoate‑protein ligase A
RA	4,638,690	C→T	9.7%	G171G (GGC→GGT)	creD →	inner membrane protein
RA	4,638,691	A→G	9.7%	T172A (ACC→GCC)	creD →	inner membrane protein

Unassigned missing coverage evidence
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	3423750–3424234	3424530–3424238	5–781	39 [38]	[38] 39	[rrfD]–[rrlD]	[rrfD],[rrlD]

Unassigned new junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	24134 =	119 (1.200)	6 (0.060)	6/242	NT	5.6%	coding (1744/2817 nt)	ileS	isoleucyl‑tRNA synthetase
	?	NC_000913	24176 =	91 (0.980)					coding (1786/2817 nt)	ileS	isoleucyl‑tRNA synthetase
*	?	NC_000913	172126 =	72 (0.730)	5 (0.050)	5/244	NT	6.9%	coding (665/1983 nt)	fhuB	iron(3+)‑hydroxamate import ABC transporter permease
	?	NC_000913	172160 =	67 (0.720)					coding (699/1983 nt)	fhuB	iron(3+)‑hydroxamate import ABC transporter permease
*	?	NC_000913	274384 =	NA (NA)	3 (0.030)	3/252	NT	NA	noncoding (766/1195 nt)	IS5	repeat region
	?	NC_000913	274422 =	NA (NA)					noncoding (728/1195 nt)	IS5	repeat region
*	?	NC_000913	274620 =	NA (NA)	4 (0.040)	4/240	NT	NA	noncoding (530/1195 nt)	IS5	repeat region
	?	NC_000913	274663 =	NA (NA)					noncoding (487/1195 nt)	IS5	repeat region
*	?	NC_000913	412077 =	74 (0.750)	7 (0.080)	7/242	NT	9.0%	coding (405/1185 nt)	araJ	L‑arabinose‑inducible putative transporter, MFS family
	?	NC_000913	412119 =	72 (0.780)					coding (363/1185 nt)	araJ	L‑arabinose‑inducible putative transporter, MFS family
*	?	NC_000913	438160 =	98 (0.990)	7 (0.070)	7/252	NT	7.2%	intergenic (‑25/+155)	yajO/dxs	2‑carboxybenzaldehyde reductase/1‑deoxyxylulose‑5‑phosphate synthase, thiamine triphosphate‑binding, FAD‑requiring
	?	NC_000913	438267 =	85 (0.880)					intergenic (‑132/+48)	yajO/dxs	2‑carboxybenzaldehyde reductase/1‑deoxyxylulose‑5‑phosphate synthase, thiamine triphosphate‑binding, FAD‑requiring
*	?	NC_000913	580753 =	57 (0.580)	5 (0.060)	5/226	NT	10.2%	intergenic (‑308/‑81)	ylcI/nohD	DUF3950 family protein, DLP12 prophage/DLP12 prophage; DNA packaging protein
	?	NC_000913	580810 =	38 (0.440)					intergenic (‑365/‑24)	ylcI/nohD	DUF3950 family protein, DLP12 prophage/DLP12 prophage; DNA packaging protein
*	?	NC_000913	1207790 =	62 (0.630)	42 (0.480)	36/226	NT	47.9%	coding (290/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	1209619 =	37 (0.430)					pseudogene (1/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	= 1207805	63 (0.640)	34 (0.390)	27/226	NT	42.5%	coding (305/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	= 1209602	37 (0.430)					pseudogene (18/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	= 1269275	NA (NA)	4 (0.040)	4/242	NT	5.5%	coding (1/108 nt)	ldrA	toxic polypeptide, small
	?	NC_000913	= 1269313	73 (0.740)					intergenic (‑38/‑10)	ldrA/rdlA	toxic polypeptide, small/sRNA antisense regulator affects LdrA translation; proposed addiction module in LDR‑A repeat, with toxic peptide LdrA
*	?	NC_000913	1287077 =	49 (0.500)	4 (0.040)	3/248	NT	8.4%	noncoding (160/171 nt)	rttR	rtT sRNA, processed from tyrT transcript
	?	NC_000913	1287111 =	40 (0.420)					noncoding (126/171 nt) coding (66/90 nt)	rttR tpr	rtT sRNA, processed from tyrT transcript protamine‑like protein
*	?	NC_000913	1287374 =	58 (0.590)	4 (0.040)	4/248	NT	6.4%	intergenic (‑46/+164)	tyrV/tyrT	tRNA‑Tyr/tRNA‑Tyr
	?	NC_000913	1287408 =	61 (0.640)					intergenic (‑80/+130)	tyrV/tyrT	tRNA‑Tyr/tRNA‑Tyr
*	?	NC_000913	= 1299498	0 (0.000)	99 (1.030)	77/250	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	1677157 =	77 (0.780)	7 (0.070)	6/254	NT	7.9%	coding (747/1533 nt)	pntA	pyridine nucleotide transhydrogenase, alpha subunit
	?	NC_000913	1677187 =	88 (0.900)					coding (717/1533 nt)	pntA	pyridine nucleotide transhydrogenase, alpha subunit
*	?	NC_000913	= 2066832	22 (0.220)	5 (0.050)	4/240	NT	19.6%	noncoding (522/1195 nt)	IS5	repeat region
	?	NC_000913	= 2102447	NA (NA)					noncoding (497/1195 nt)	IS5	repeat region
*	?	NC_000913	2811348 =	85 (0.860)	4 (0.040)	4/240	NT	5.2%	intergenic (+48/‑79)	mprA/emrA	transcriptional repressor of microcin B17 synthesis and multidrug efflux/multidrug efflux system
	?	NC_000913	2811372 =	68 (0.740)					intergenic (+72/‑55)	mprA/emrA	transcriptional repressor of microcin B17 synthesis and multidrug efflux/multidrug efflux system
*	?	NC_000913	= 2900530	46 (0.470)	6 (0.070)	6/236	NT	11.3%	intergenic (‑257/‑62)	ygcW/yqcE	putative SDR family oxidoreductase/putative MFS transporter, inner membrane protein
	?	NC_000913	= 2900548	52 (0.570)					intergenic (‑275/‑44)	ygcW/yqcE	putative SDR family oxidoreductase/putative MFS transporter, inner membrane protein
*	?	NC_000913	= 2921558	70 (0.710)	4 (0.040)	4/250	NT	5.3%	coding (543/1353 nt)	gudP	putative D‑glucarate transporter
	?	NC_000913	= 2921578	76 (0.790)					coding (523/1353 nt)	gudP	putative D‑glucarate transporter
*	?	NC_000913	2996219 =	76 (0.770)	4 (0.040)	4/246	NT	5.0%	pseudogene (142/399 nt)	ygeO	pseudogene, orgA family, part of T3SS PAI ETT2 remnant
	?	NC_000913	2996248 =	78 (0.830)					pseudogene (113/399 nt)	ygeO	pseudogene, orgA family, part of T3SS PAI ETT2 remnant
*	?	NC_000913	3123440 =	74 (0.750)	5 (0.050)	5/248	NT	6.5%	coding (366/2172 nt)	glcB	malate synthase G
	?	NC_000913	3123495 =	72 (0.760)					coding (311/2172 nt)	glcB	malate synthase G
*	?	NC_000913	3620227 =	NA (NA)	3 (0.030)	3/246	NT	100%	coding (1036/4236 nt)	rhsB	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
	?	NC_000913	3620250 =	0 (0.000)					coding (1059/4236 nt)	rhsB	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
*	?	NC_000913	= 3620350	NA (NA)	4 (0.040)	4/246	NT	100%	coding (1159/4236 nt)	rhsB	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
	?	NC_000913	= 3620425	0 (0.000)					coding (1234/4236 nt)	rhsB	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
*	?	NC_000913	= 3621553	NA (NA)	4 (0.040)	4/244	NT	100%	coding (2362/4236 nt)	rhsB	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
	?	NC_000913	= 3621603	0 (0.000)					coding (2412/4236 nt)	rhsB	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
*	?	NC_000913	3721045 =	106 (1.070)	251 (2.560)	146/256	NT	72.2%	noncoding (413/1443 nt)	IS150	repeat region
	?	NC_000913	= 3839774	88 (0.900)					coding (220/819 nt)	nlpA	cytoplasmic membrane lipoprotein‑28
*	?	NC_000913	= 3774359	NA (NA)	17 (0.180)	11/244	NT	5.1%	intergenic (+165/‑65)	mtlA/mtlD	mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent
	?	NC_000913	= 3774387	319 (3.410)					intergenic (+193/‑37)	mtlA/mtlD	mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent
*	?	NC_000913	= 4155534	80 (0.810)	4 (0.040)	3/246	NT	5.3%	coding (534/1005 nt)	argC	N‑acetyl‑gamma‑glutamylphosphate reductase, NAD(P)‑binding
	?	NC_000913	= 4155577	67 (0.710)					coding (577/1005 nt)	argC	N‑acetyl‑gamma‑glutamylphosphate reductase, NAD(P)‑binding
*	?	NC_000913	= 4168341	42 (0.420)	7 (0.080)	4/238	NT	16.1%	intergenic (+141/‑31)	rrsB/gltT	16S ribosomal RNA of rrnB operon/tRNA‑Glu
	?	NC_000913	= 4168363	34 (0.370)					intergenic (+163/‑9)	rrsB/gltT	16S ribosomal RNA of rrnB operon/tRNA‑Glu
*	?	NC_000913	= 4315996	66 (0.670)	4 (0.040)	4/246	NT	5.4%	coding (87/558 nt)	phnN	ribose 1,5‑bisphosphokinase
	?	NC_000913	= 4316066	78 (0.830)					coding (17/558 nt)	phnN	ribose 1,5‑bisphosphokinase