breseq  version 0.35.4  revision f352f80f4bc9 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence	position	mutation	freq	annotation	gene	description
RA	9,907	A→C	9.9%	intergenic (+14/+21)	mog → / ← satP	molybdochelatase incorporating molybdenum into molybdopterin/succinate‑acetate transporter
RA	9,908	G→T	10.1%	intergenic (+15/+20)	mog → / ← satP	molybdochelatase incorporating molybdenum into molybdopterin/succinate‑acetate transporter
RA	11,118	T→G	6.8%	N80T (AAC→ACC)	yaaW ←	UPF0174 family protein
RA	11,127	C→G	7.1%	S77T (AGT→ACT)	yaaW ←	UPF0174 family protein
RA	11,136	C→A	6.3%	G74V (GGT→GTT)	yaaW ←	UPF0174 family protein
RA	52,968	A→G	5.0%	V150A (GTG→GCG)	pdxA ←	4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent
RA	63,070	G→A	6.0%	D65D (GAC→GAT) ‡	rapA ←	RNA polymerase remodeling/recycling factor ATPase; RNA polymerase‑associated, ATP‑dependent RNA translocase
RA	63,072	C→G	6.0%	D65H (GAC→CAC) ‡	rapA ←	RNA polymerase remodeling/recycling factor ATPase; RNA polymerase‑associated, ATP‑dependent RNA translocase
RA	63,074	T→C	6.0%	H64R (CAT→CGT)	rapA ←	RNA polymerase remodeling/recycling factor ATPase; RNA polymerase‑associated, ATP‑dependent RNA translocase
RA	167,917	A→C	8.2%	Q145P (CAG→CCG) ‡	fhuA →	ferrichrome outer membrane transporter
RA	167,918	G→C	8.0%	Q145H (CAG→CAC) ‡	fhuA →	ferrichrome outer membrane transporter
RA	167,919	G→T	8.2%	G146C (GGC→TGC)	fhuA →	ferrichrome outer membrane transporter
RA	176,977	A→G	5.1%	intergenic (+23/+24)	erpA → / ← yadS	iron‑sulfur cluster insertion protein/UPF0126 family inner membrane protein
RA	208,552	T→A	9.7%	L1143I (TTA→ATA)	dnaE →	DNA polymerase III alpha subunit
RA	217,037	A→T	5.0%	intergenic (‑34/+20)	yaeF ← / ← proS	putative lipoprotein/prolyl‑tRNA synthetase
RA	244,809	A→T	6.6%	S161S (TCA→TCT)	yafJ →	type 2 glutamine amidotransferase family protein
RA	256,449	T→C	5.8%	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	5.6%	intergenic (+19/‑73)	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	273,534	Δ1 bp	5.0%	pseudogene (688/1108 nt)	ykfC →	CP4‑6 prophage; conserved protein;Phage or Prophage Related
RA	273,539	G→T	5.6%	pseudogene (693/1108 nt)	ykfC →	CP4‑6 prophage; conserved protein;Phage or Prophage Related
RA	273,547:1	+T	5.1%	pseudogene (701/1108 nt)	ykfC →	CP4‑6 prophage; conserved protein;Phage or Prophage Related
RA	314,255	T→C	5.5%	intergenic (‑450/‑102)	ykgP ← / → eaeH	pseudogene, oxidoreductase family/pseudogene, attaching and effacing protein homology;factor; Not classified
RA	314,258	G→A	5.4%	intergenic (‑453/‑99)	ykgP ← / → eaeH	pseudogene, oxidoreductase family/pseudogene, attaching and effacing protein homology;factor; Not classified
RA	314,573	G→C	6.5%	pseudogene (217/872 nt)	eaeH →	pseudogene, attaching and effacing protein homology;factor; Not classified
RA	314,576	T→G	10.1%	pseudogene (220/872 nt)	eaeH →	pseudogene, attaching and effacing protein homology;factor; Not classified
RA	314,578	G→A	6.8%	pseudogene (222/872 nt)	eaeH →	pseudogene, attaching and effacing protein homology;factor; Not classified
RA	314,584	C→G	6.5%	pseudogene (228/872 nt)	eaeH →	pseudogene, attaching and effacing protein homology;factor; Not classified
RA	314,590	T→C	6.7%	pseudogene (234/872 nt)	eaeH →	pseudogene, attaching and effacing protein homology;factor; Not classified
RA	314,592	C→A	7.4%	pseudogene (236/872 nt)	eaeH →	pseudogene, attaching and effacing protein homology;factor; Not classified
RA	314,595	G→C	7.5%	pseudogene (239/872 nt)	eaeH →	pseudogene, attaching and effacing protein homology;factor; Not classified
RA	328,375	A→C	5.3%	I120S (ATC→AGC)	betB ←	betaine aldehyde dehydrogenase, NAD‑dependent
RA	328,377	C→G	5.3%	L119L (CTG→CTC) ‡	betB ←	betaine aldehyde dehydrogenase, NAD‑dependent
RA	328,379	G→T	5.3%	L119M (CTG→ATG) ‡	betB ←	betaine aldehyde dehydrogenase, NAD‑dependent
RA	329,509	T→C	5.3%	V16A (GTG→GCG)	betT →	choline transporter of high affinity
RA	329,512	T→A	5.8%	V17E (GTG→GAG)	betT →	choline transporter of high affinity
RA	329,514	T→G	5.1%	F18V (TTT→GTT)	betT →	choline transporter of high affinity
RA	329,519	C→A	5.2%	Y19* (TAC→TAA)	betT →	choline transporter of high affinity
RA	360,391	G→A	5.5%	G134S (GGC→AGC)	cynX →	putative cyanate transporter
RA	371,064	C→G	6.5%	A263G (GCC→GGC)	mhpB →	2,3‑dihydroxyphenylpropionate 1,2‑dioxygenase
RA	371,067	T→A	6.3%	I264N (ATT→AAT)	mhpB →	2,3‑dihydroxyphenylpropionate 1,2‑dioxygenase
RA	371,070	C→G	6.6%	A265G (GCC→GGC)	mhpB →	2,3‑dihydroxyphenylpropionate 1,2‑dioxygenase
RA	397,273	C→T	5.9%	A212V (GCC→GTC)	sbmA →	peptide antibiotic transporter
RA	397,277	C→G	5.7%	I213M (ATC→ATG)	sbmA →	peptide antibiotic transporter
RA	397,281	A→G	5.8%	T215A (ACG→GCG)	sbmA →	peptide antibiotic transporter
RA	399,801	A→G	5.3%	Q70R (CAA→CGA)	yaiZ →	DUF2754 family putative inner membrane protein
RA	399,806	G→T	5.3%	intergenic (+1/+23)	yaiZ → / ← ddlA	DUF2754 family putative inner membrane protein/D‑alanine‑D‑alanine ligase A
RA	399,808	A→T	5.5%	intergenic (+3/+21)	yaiZ → / ← ddlA	DUF2754 family putative inner membrane protein/D‑alanine‑D‑alanine ligase A
RA	399,810	A→C	5.7%	intergenic (+5/+19)	yaiZ → / ← ddlA	DUF2754 family putative inner membrane protein/D‑alanine‑D‑alanine ligase A
RA	399,815	C→T	5.4%	intergenic (+10/+14)	yaiZ → / ← ddlA	DUF2754 family putative inner membrane protein/D‑alanine‑D‑alanine ligase A
RA	431,107	A→T	6.1%	intergenic (+155/+22)	yajD → / ← tsx	HNH nuclease family protein/nucleoside channel, receptor of phage T6 and colicin K
RA	431,109	A→T	5.8%	intergenic (+157/+20)	yajD → / ← tsx	HNH nuclease family protein/nucleoside channel, receptor of phage T6 and colicin K
RA	431,111	A→T	6.5%	intergenic (+159/+18)	yajD → / ← tsx	HNH nuclease family protein/nucleoside channel, receptor of phage T6 and colicin K
RA	446,786	C→T	8.3%	intergenic (‑120/+29)	yajR ← / ← cyoE	putative transporter/protoheme IX farnesyltransferase
RA	446,787	G→A	8.2%	intergenic (‑121/+28)	yajR ← / ← cyoE	putative transporter/protoheme IX farnesyltransferase
RA	446,788	T→C	8.2%	intergenic (‑122/+27)	yajR ← / ← cyoE	putative transporter/protoheme IX farnesyltransferase
RA	446,789	A→G	8.3%	intergenic (‑123/+26)	yajR ← / ← cyoE	putative transporter/protoheme IX farnesyltransferase
RA	464,356	A→T	6.7%	intergenic (+48/‑46)	ybaV → / → fadM	putative competence‑suppressing periplasmic helix‑hairpin‑helix DNA‑binding protein/long‑chain acyl‑CoA thioesterase III
RA	475,971	C→G	6.1%	intergenic (+20/+11)	ybaY → / ← ybaZ	outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL
RA	475,972	C→G	5.3%	intergenic (+21/+10)	ybaY → / ← ybaZ	outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL
RA	481,225	T→G	5.6%	intergenic (‑517/+29)	tomB ← / ← acrB	Hha toxicity attenuator; conjugation‑related protein/multidrug efflux system protein
RA	481,228	C→A	6.5%	intergenic (‑520/+26)	tomB ← / ← acrB	Hha toxicity attenuator; conjugation‑related protein/multidrug efflux system protein
RA	501,462	T→G	5.1%	intergenic (+33/+100)	gsk → / ← ybaL	inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter
RA	501,463	C→A	5.0%	intergenic (+34/+99)	gsk → / ← ybaL	inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter
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	6.5%	noncoding (68/84 nt)	chiX →	sRNA antisense regulator of OM chitoporin ChiP(YbfM), Hfq‑dependent
RA	548,239	C→A	5.8%	S520R (AGC→AGA)	fdrA →	putative NAD(P)‑binding acyl‑CoA synthetase
RA	558,385	T→G	5.9%	R58R (CGT→CGG)	sfmA →	FimA homolog, function unknown
RA	558,386	A→T	5.9%	T59S (ACC→TCC) ‡	sfmA →	FimA homolog, function unknown
RA	558,387	C→A	6.7%	T59N (ACC→AAC) ‡	sfmA →	FimA homolog, function unknown
RA	603,391	C→G	7.4%	intergenic (+56/+25)	pheP → / ← ybdG	phenylalanine transporter/mechanosensitive channel protein, miniconductance
RA	603,393	T→A	7.6%	intergenic (+58/+23)	pheP → / ← ybdG	phenylalanine transporter/mechanosensitive channel protein, miniconductance
RA	603,395	C→G	7.6%	intergenic (+60/+21)	pheP → / ← ybdG	phenylalanine transporter/mechanosensitive channel protein, miniconductance
RA	657,084	T→A	5.6%	N176K (AAT→AAA)	pagP →	phospholipid:lipid A palmitoyltransferase
RA	657,087	G→A	5.6%	V177V (GTG→GTA)	pagP →	phospholipid:lipid A palmitoyltransferase
RA	657,088	T→C	5.6%	Y178H (TAC→CAC)	pagP →	phospholipid:lipid A palmitoyltransferase
RA	657,091	T→A	5.8%	F179I (TTT→ATT)	pagP →	phospholipid:lipid A palmitoyltransferase
RA	660,180	A→G	5.4%	Y13H (TAC→CAC)	lipA ←	lipoate synthase
RA	662,683	A→T	5.1%	intergenic (‑41/+69)	ybeD ← / ← dacA	UPF0250 family protein/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 5)
RA	662,684	G→T	5.1%	intergenic (‑42/+68)	ybeD ← / ← dacA	UPF0250 family protein/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 5)
RA	662,685	A→C	6.1%	intergenic (‑43/+67)	ybeD ← / ← dacA	UPF0250 family protein/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 5)
RA	662,686	A→T	5.7%	intergenic (‑44/+66)	ybeD ← / ← dacA	UPF0250 family protein/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 5)
RA	690,713	C→T	5.1%	A57T (GCC→ACC)	lnt ←	apolipoprotein N‑acyltransferase
RA	721,006	T→A	5.1%	intergenic (+166/+50)	ybfK → / ← kdpE	uncharacterized protein/response regulator in two‑component regulatory system with KdpD
RA	721,009	T→A	6.0%	intergenic (+169/+47)	ybfK → / ← kdpE	uncharacterized protein/response regulator in two‑component regulatory system with KdpD
RA	721,011	T→A	5.2%	intergenic (+171/+45)	ybfK → / ← kdpE	uncharacterized protein/response regulator in two‑component regulatory system with KdpD
RA	726,054	A→C	6.9%	V328G (GTG→GGG)	kdpB ←	potassium translocating ATPase, subunit B
RA	752,066	T→G	5.2%	D35A (GAC→GCC)	ybgQ ←	putative outer membrane protein
RA	756,099	T→C	79.8%	W65R (TGG→CGG)	sdhA →	succinate dehydrogenase, flavoprotein subunit
RA	758,306	T→G	15.8%	C206W (TGT→TGG)	sdhB →	succinate dehydrogenase, FeS subunit
RA	774,648	A→T	5.2%	intergenic (+46/‑104)	ybgE → / → ybgC	putative inner membrane protein in cydABX‑ybgE operon/acyl‑CoA thioester hydrolase
RA	805,043	C→G	5.4%	T514S (ACT→AGT)	ybhJ →	aconitase family protein
RA	805,082	G→A	5.0%	W527* (TGG→TAG)	ybhJ →	aconitase family protein
RA	824,572	T→A	5.3%	intergenic (‑75/‑58)	ybhP ← / → ybhQ	endo/exonuclease/phosphatase family protein/inner membrane protein
RA	824,573	T→A	5.1%	intergenic (‑76/‑57)	ybhP ← / → ybhQ	endo/exonuclease/phosphatase family protein/inner membrane protein
RA	836,745	C→T	6.4%	A132V (GCA→GTA)	ybiC →	putative dehydrogenase
RA	850,280	T→G	7.4%	intergenic (‑183/‑170)	rhtA ← / → ompX	threonine and homoserine efflux system/outer membrane protein X
RA	850,281	A→T	7.5%	intergenic (‑184/‑169)	rhtA ← / → ompX	threonine and homoserine efflux system/outer membrane protein X
RA	850,282	C→A	8.4%	intergenic (‑185/‑168)	rhtA ← / → ompX	threonine and homoserine efflux system/outer membrane protein X
RA	858,664	G→T	7.6%	S133* (TCA→TAA)	ybiU ←	DUF1479 family protein
RA	876,568	A→T	5.3%	N412Y (AAT→TAT) ‡	yliF →	putative membrane‑anchored diguanylate cyclase
RA	876,569	A→T	5.5%	N412I (AAT→ATT) ‡	yliF →	putative membrane‑anchored diguanylate cyclase
RA	884,868	T→A	6.6%	L399* (TTA→TAA)	mdfA →	multidrug efflux system protein
RA	887,392	T→A	5.5%	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	5.0%	intergenic (‑54/‑30)	ybjJ ← / → rcdA	putative drug efflux MFS transporter, inner membrane protein/transcriptional regulator of csgD and ybiJI; autoregulator
RA	892,020	G→T	6.5%	L18L (CTG→CTT)	rimK →	ribosomal protein S6 modification protein
RA	900,201	T→G	6.1%	K125N (AAA→AAC) ‡	artJ ←	arginine ABC transporter periplasmic binding protein
RA	900,202	T→A	6.6%	K125I (AAA→ATA) ‡	artJ ←	arginine ABC transporter periplasmic binding protein
RA	900,205	A→T	6.1%	L124Q (CTG→CAG)	artJ ←	arginine ABC transporter periplasmic binding protein
RA	900,208	T→A	5.9%	D123V (GAT→GTT) ‡	artJ ←	arginine ABC transporter periplasmic binding protein
RA	900,209	C→A	5.9%	D123Y (GAT→TAT) ‡	artJ ←	arginine ABC transporter periplasmic binding protein
RA	916,383	A→T	5.1%	intergenic (‑336/‑90)	aqpZ ← / → ybjD	aquaporin Z/putative OLD family ATP‑dependent endonuclease; DUF2813 family protein
RA	933,155	T→C	7.2%	intergenic (+66/‑69)	lrp → / → ftsK	leucine‑responsive global transcriptional regulator/DNA translocase at septal ring sorting daughter chromsomes
RA	933,156	G→A	7.3%	intergenic (+67/‑68)	lrp → / → ftsK	leucine‑responsive global transcriptional regulator/DNA translocase at septal ring sorting daughter chromsomes
RA	933,159	G→T	7.3%	intergenic (+70/‑65)	lrp → / → ftsK	leucine‑responsive global transcriptional regulator/DNA translocase at septal ring sorting daughter chromsomes
RA	933,162	A→C	6.9%	intergenic (+73/‑62)	lrp → / → ftsK	leucine‑responsive global transcriptional regulator/DNA translocase at septal ring sorting daughter chromsomes
RA	933,165	T→C	6.8%	intergenic (+76/‑59)	lrp → / → ftsK	leucine‑responsive global transcriptional regulator/DNA translocase at septal ring sorting daughter chromsomes
RA	933,166	G→A	6.8%	intergenic (+77/‑58)	lrp → / → ftsK	leucine‑responsive global transcriptional regulator/DNA translocase at septal ring sorting daughter chromsomes
RA	958,676	A→T	5.8%	M342L (ATG→TTG) ‡	serC →	3‑phosphoserine/phosphohydroxythreonine aminotransferase
RA	958,678	G→C	6.1%	M342I (ATG→ATC) ‡	serC →	3‑phosphoserine/phosphohydroxythreonine aminotransferase
RA	958,680	C→A	6.2%	P343Q (CCG→CAG)	serC →	3‑phosphoserine/phosphohydroxythreonine aminotransferase
RA	958,683	T→G	6.0%	L344R (CTG→CGG)	serC →	3‑phosphoserine/phosphohydroxythreonine aminotransferase
RA	958,685	G→C	6.1%	E345Q (GAA→CAA) ‡	serC →	3‑phosphoserine/phosphohydroxythreonine aminotransferase
RA	958,687	A→T	6.0%	E345D (GAA→GAT) ‡	serC →	3‑phosphoserine/phosphohydroxythreonine aminotransferase
RA	959,170	G→A	6.1%	R120H (CGT→CAT)	aroA →	5‑enolpyruvylshikimate‑3‑phosphate synthetase
RA	964,148	T→C	6.6%	intergenic (+36/‑172)	ihfB → / → ycaI	integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein
RA	964,150	T→A	6.7%	intergenic (+38/‑170)	ihfB → / → ycaI	integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein
RA	964,152	G→A	6.7%	intergenic (+40/‑168)	ihfB → / → ycaI	integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein
RA	972,240	T→C	5.0%	N163N (AAT→AAC)	ycbJ →	protein kinase‑like domain protein
RA	981,237	A→C	5.4%	Q64P (CAG→CCG)	ldtD →	murein L,D‑transpeptidase
RA	987,418	A→T	7.0%	intergenic (‑436/+167)	ompF ← / ← asnS	outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
RA	987,420	A→C	7.0%	intergenic (‑438/+165)	ompF ← / ← asnS	outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
RA	987,421	A→T	6.5%	intergenic (‑439/+164)	ompF ← / ← asnS	outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
RA	987,422	G→T	7.2%	intergenic (‑440/+163)	ompF ← / ← asnS	outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
RA	987,424	A→T	6.5%	intergenic (‑442/+161)	ompF ← / ← asnS	outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
RA	1,011,926	G→A	6.9%	intergenic (+55/‑75)	uup → / → pqiA	replication regulatory ABC‑F family DNA‑binding ATPase/paraquat‑inducible, SoxRS‑regulated inner membrane protein
RA	1,011,930	T→C	6.6%	intergenic (+59/‑71)	uup → / → pqiA	replication regulatory ABC‑F family DNA‑binding ATPase/paraquat‑inducible, SoxRS‑regulated inner membrane protein
RA	1,011,931	G→C	6.7%	intergenic (+60/‑70)	uup → / → pqiA	replication regulatory ABC‑F family DNA‑binding ATPase/paraquat‑inducible, SoxRS‑regulated inner membrane protein
RA	1,011,932	G→A	6.6%	intergenic (+61/‑69)	uup → / → pqiA	replication regulatory ABC‑F family DNA‑binding ATPase/paraquat‑inducible, SoxRS‑regulated inner membrane protein
RA	1,011,936	T→C	6.6%	intergenic (+65/‑65)	uup → / → pqiA	replication regulatory ABC‑F family DNA‑binding ATPase/paraquat‑inducible, SoxRS‑regulated inner membrane protein
RA	1,030,720	C→T	5.4%	intergenic (‑52/+39)	tusE ← / ← yccA	mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase/Modulator of FtsH protease, inner membrane protein
RA	1,030,724	A→T	5.1%	intergenic (‑56/+35)	tusE ← / ← yccA	mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase/Modulator of FtsH protease, inner membrane protein
RA	1,030,726	A→T	5.2%	intergenic (‑58/+33)	tusE ← / ← yccA	mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase/Modulator of FtsH protease, inner membrane protein
RA	1,030,732	A→G	5.1%	intergenic (‑64/+27)	tusE ← / ← yccA	mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase/Modulator of FtsH protease, inner membrane protein
RA	1,070,873	A→G	7.7%	V28A (GTC→GCC)	rutE ←	putative malonic semialdehyde reductase
RA	1,070,878	T→A	9.4%	T26T (ACA→ACT) ‡	rutE ←	putative malonic semialdehyde reductase
RA	1,070,880	T→A	7.7%	T26S (ACA→TCA) ‡	rutE ←	putative malonic semialdehyde reductase
RA	1,070,882	T→A	8.1%	E25V (GAG→GTG)	rutE ←	putative malonic semialdehyde reductase
RA	1,070,887	C→T	7.2%	W23* (TGG→TGA)	rutE ←	putative malonic semialdehyde reductase
RA	1,083,705	G→A	5.5%	T110T (ACG→ACA)	efeB →	deferrrochelatase, periplasmic
RA	1,101,543	T→G	7.6%	K48Q (AAA→CAA)	csgG ←	curli production assembly/transport outer membrane lipoprotein
RA	1,101,548	G→A	6.5%	T46M (ACG→ATG)	csgG ←	curli production assembly/transport outer membrane lipoprotein
RA	1,101,551	G→T	6.9%	P45Q (CCG→CAG)	csgG ←	curli production assembly/transport outer membrane lipoprotein
RA	1,101,554	G→C	6.5%	A44G (GCG→GGG) ‡	csgG ←	curli production assembly/transport outer membrane lipoprotein
RA	1,101,555	C→A	6.2%	A44S (GCG→TCG) ‡	csgG ←	curli production assembly/transport outer membrane lipoprotein
RA	1,101,556	T→G	7.1%	P43P (CCA→CCC) ‡	csgG ←	curli production assembly/transport outer membrane lipoprotein
RA	1,101,557	G→C	6.6%	P43R (CCA→CGA) ‡	csgG ←	curli production assembly/transport outer membrane lipoprotein
RA	1,101,560	A→C	5.9%	L42R (CTG→CGG)	csgG ←	curli production assembly/transport outer membrane lipoprotein
RA	1,101,563	T→C	6.3%	H41R (CAT→CGT)	csgG ←	curli production assembly/transport outer membrane lipoprotein
RA	1,101,568	C→A	6.3%	L39F (TTG→TTT)	csgG ←	curli production assembly/transport outer membrane lipoprotein
RA	1,113,544	G→A	5.5%	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	5.5%	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	5.6%	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	1,134,662	A→C	5.5%	intergenic (+105/‑67)	flgF → / → flgG	flagellar component of cell‑proximal portion of basal‑body rod/flagellar component of cell‑distal portion of basal‑body rod
RA	1,134,668	T→A	6.9%	intergenic (+111/‑61)	flgF → / → flgG	flagellar component of cell‑proximal portion of basal‑body rod/flagellar component of cell‑distal portion of basal‑body rod
RA	1,134,669	T→A	6.9%	intergenic (+112/‑60)	flgF → / → flgG	flagellar component of cell‑proximal portion of basal‑body rod/flagellar component of cell‑distal portion of basal‑body rod
RA	1,134,675	G→T	7.9%	intergenic (+118/‑54)	flgF → / → flgG	flagellar component of cell‑proximal portion of basal‑body rod/flagellar component of cell‑distal portion of basal‑body rod
RA	1,134,676	C→T	7.8%	intergenic (+119/‑53)	flgF → / → flgG	flagellar component of cell‑proximal portion of basal‑body rod/flagellar component of cell‑distal portion of basal‑body rod
RA	1,147,548	T→G	5.9%	intergenic (+8/‑73)	rpmF → / → plsX	50S ribosomal subunit protein L32/putative phosphate acyltransferase
RA	1,147,690	G→A	5.4%	A24T (GCA→ACA) ‡	plsX →	putative phosphate acyltransferase
RA	1,147,691	C→T	5.4%	A24V (GCA→GTA) ‡	plsX →	putative phosphate acyltransferase
RA	1,147,692	A→G	5.4%	A24A (GCA→GCG) ‡	plsX →	putative phosphate acyltransferase
RA	1,147,693	T→C	5.0%	L25L (TTG→CTG)	plsX →	putative phosphate acyltransferase
RA	1,151,873	T→A	6.0%	intergenic (+22/‑66)	acpP → / → fabF	acyl carrier protein (ACP)/3‑oxoacyl‑[acyl‑carrier‑protein] synthase II
RA	1,151,874	T→A	5.2%	intergenic (+23/‑65)	acpP → / → fabF	acyl carrier protein (ACP)/3‑oxoacyl‑[acyl‑carrier‑protein] synthase II
RA	1,174,077	G→A	5.1%	intergenic (‑113/+15)	mfd ← / ← ycfT	transcription‑repair coupling factor/inner membrane protein
RA	1,203,009	G→C	6.3%	intergenic (‑76/‑15)	cohE ← / → croE	e14 prophage; repressor protein phage e14/e14 prophage; putative DNA‑binding transcriptional regulator
RA	1,214,861	C→A	5.3%	A205A (GCG→GCT)	bluF ←	anti‑repressor for YcgE, blue light‑responsive; FAD‑binding; inactive c‑di‑GMP phosphodiesterase‑like EAL domain protein
RA	1,214,867	G→A	6.2%	A203A (GCC→GCT)	bluF ←	anti‑repressor for YcgE, blue light‑responsive; FAD‑binding; inactive c‑di‑GMP phosphodiesterase‑like EAL domain protein
RA	1,224,242	A→T	5.3%	intergenic (+335/+37)	ycgI → / ← minE	pseudogene/cell division topological specificity factor
RA	1,226,114	C→G	7.6%	intergenic (‑34/‑486)	minC ← / → ycgJ	inhibitor of FtsZ ring polymerization/uncharacterized protein
RA	1,226,115	A→C	7.6%	intergenic (‑35/‑485)	minC ← / → ycgJ	inhibitor of FtsZ ring polymerization/uncharacterized protein
RA	1,226,118	G→T	8.1%	intergenic (‑38/‑482)	minC ← / → ycgJ	inhibitor of FtsZ ring polymerization/uncharacterized protein
RA	1,226,119	C→G	7.6%	intergenic (‑39/‑481)	minC ← / → ycgJ	inhibitor of FtsZ ring polymerization/uncharacterized protein
RA	1,232,481	C→T	5.2%	intergenic (+27/+19)	umuC → / ← dsbB	translesion error‑prone DNA polymerase V subunit; DNA polymerase activity/oxidoreductase that catalyzes reoxidation of DsbA protein disulfide isomerase I
RA	1,232,484	A→G	5.2%	intergenic (+30/+16)	umuC → / ← dsbB	translesion error‑prone DNA polymerase V subunit; DNA polymerase activity/oxidoreductase that catalyzes reoxidation of DsbA protein disulfide isomerase I
RA	1,239,604	C→T	7.0%	V242V (GTC→GTT)	dadX →	alanine racemase, catabolic, PLP‑binding
RA	1,250,964	G→A	5.4%	intergenic (‑126/‑102)	dhaK ← / → dhaR	dihydroxyacetone kinase, PTS‑dependent, dihydroxyacetone‑binding subunit/dhaKLM operon transcription activator
RA	1,270,723	T→G	5.2%	intergenic (+263/+26)	rdlC → / ← chaA	sRNA antisense regulator affects LdrC translation; proposed addiction module in LDR‑C repeat, with toxic peptide LdrC/calcium/sodium:proton antiporter
RA	1,270,726	C→G	5.0%	intergenic (+266/+23)	rdlC → / ← chaA	sRNA antisense regulator affects LdrC translation; proposed addiction module in LDR‑C repeat, with toxic peptide LdrC/calcium/sodium:proton antiporter
RA	1,270,729	C→A	5.0%	intergenic (+269/+20)	rdlC → / ← chaA	sRNA antisense regulator affects LdrC translation; proposed addiction module in LDR‑C repeat, with toxic peptide LdrC/calcium/sodium:proton antiporter
RA	1,272,538	A→T	6.0%	D11V (GAT→GTT)	chaC →	cation transport regulator
RA	1,272,541	G→T	6.1%	C12F (TGT→TTT) ‡	chaC →	cation transport regulator
RA	1,272,542	T→A	6.1%	C12* (TGT→TGA) ‡	chaC →	cation transport regulator
RA	1,272,543	A→C	6.0%	K13Q (AAA→CAA)	chaC →	cation transport regulator
RA	1,272,546	A→T	6.8%	T14S (ACG→TCG)	chaC →	cation transport regulator
RA	1,286,983	A→G	11.4%	intergenic (+457/+83)	narI → / ← rttR	nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript
RA	1,287,522	T→G	6.4%	intergenic (‑194/+16)	tyrV ← / ← tyrT	tRNA‑Tyr/tRNA‑Tyr
RA	1,287,525	C→A	7.0%	intergenic (‑197/+13)	tyrV ← / ← tyrT	tRNA‑Tyr/tRNA‑Tyr
RA	1,292,107	Δ1 bp	5.7%	coding (651/909 nt)	galU →	glucose‑1‑phosphate uridylyltransferase
MC JC	1,299,499	Δ1,199 bp	100%	intergenic (+254/‑485)	ychE → / → oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
RA	1,315,796	A→G	5.4%	intergenic (‑26/+60)	yciF ← / ← yciG	putative rubrerythrin/ferritin‑like metal‑binding protein/KGG family protein
RA	1,315,800	A→G	5.3%	intergenic (‑30/+56)	yciF ← / ← yciG	putative rubrerythrin/ferritin‑like metal‑binding protein/KGG family protein
RA	1,315,803	C→T	5.2%	intergenic (‑33/+53)	yciF ← / ← yciG	putative rubrerythrin/ferritin‑like metal‑binding protein/KGG family protein
RA	1,315,807	C→T	5.3%	intergenic (‑37/+49)	yciF ← / ← yciG	putative rubrerythrin/ferritin‑like metal‑binding protein/KGG family protein
RA	1,324,839	G→T	5.2%	E32* (GAA→TAA)	yciQ →	enhancer of membrane protein expression; putative inner membrane protein
RA	1,351,228	G→C	5.2%	intergenic (‑189/+179)	fabI ← / ← ycjD	enoyl‑[acyl‑carrier‑protein] reductase, NADH‑dependent/DUF559 family endonuclease‑related protein
RA	1,367,335	A→G	6.6%	F193S (TTT→TCT)	pspF ←	psp operon transcriptional activator
RA	1,367,337	G→A	6.6%	Y192Y (TAC→TAT)	pspF ←	psp operon transcriptional activator
RA	1,367,340	T→C	6.6%	E191E (GAA→GAG) ‡	pspF ←	psp operon transcriptional activator
RA	1,367,342	C→T	6.7%	E191K (GAA→AAA) ‡	pspF ←	psp operon transcriptional activator
RA	1,419,910	A→T	5.0%	L111Q (CTG→CAG)	racR ←	Rac prophage; putative DNA‑binding transcriptional regulator
RA	1,425,640	A→C	6.6%	*88Y (TAA→TAC)  pseudogene (11/453 nt)	ynaK → ydaY →	Rac prophage; conserved protein pseudogene, Rac prophage;Phage or Prophage Related
RA	1,425,641	C→T	6.6%	pseudogene (12/453 nt)	ydaY →	pseudogene, Rac prophage;Phage or Prophage Related
RA	1,425,646	A→G	6.9%	pseudogene (17/453 nt)	ydaY →	pseudogene, Rac prophage;Phage or Prophage Related
RA	1,425,647	G→T	6.9%	pseudogene (18/453 nt)	ydaY →	pseudogene, Rac prophage;Phage or Prophage Related
RA	1,444,026	A→T	5.6%	S326C (AGT→TGT)	ydbH →	putative membrane‑anchored protein, function unknown
RA	1,449,799	C→G	5.4%	T517T (ACG→ACC)	tynA ←	tyramine oxidase, copper‑requiring
RA	1,449,802	A→G	5.4%	A516A (GCT→GCC) ‡	tynA ←	tyramine oxidase, copper‑requiring
RA	1,449,803	G→C	5.1%	A516G (GCT→GGT) ‡	tynA ←	tyramine oxidase, copper‑requiring
RA	1,449,804	C→T	5.4%	A516T (GCT→ACT) ‡	tynA ←	tyramine oxidase, copper‑requiring
RA	1,449,807	C→G	5.4%	G515R (GGT→CGT)	tynA ←	tyramine oxidase, copper‑requiring
RA	1,457,976	A→T	8.0%	G160G (GGA→GGT)	paaF →	2,3‑dehydroadipyl‑CoA hydratase
RA	1,457,979	A→T	9.0%	E161D (GAA→GAT)	paaF →	2,3‑dehydroadipyl‑CoA hydratase
RA	1,457,981	G→C	8.0%	S162T (AGT→ACT)	paaF →	2,3‑dehydroadipyl‑CoA hydratase
RA	1,457,983	A→T	9.1%	I163F (ATC→TTC)	paaF →	2,3‑dehydroadipyl‑CoA hydratase
RA	1,457,986	A→T	8.0%	T164S (ACC→TCC)	paaF →	2,3‑dehydroadipyl‑CoA hydratase
RA	1,504,504	G→A	5.7%	S263N (AGC→AAC)	insQ →	IS609 transposase B
RA	1,559,452	C→T	5.2%	G153G (GGG→GGA)	ddpC ←	D,D‑dipeptide ABC transporter permease
RA	1,568,915	G→A	7.6%	intergenic (‑92/+39)	yddW ← / ← gadC	liprotein, glycosyl hydrolase homolog/glutamate:gamma‑aminobutyric acid antiporter
RA	1,568,917	A→T	7.8%	intergenic (‑94/+37)	yddW ← / ← gadC	liprotein, glycosyl hydrolase homolog/glutamate:gamma‑aminobutyric acid antiporter
RA	1,568,919	T→C	7.9%	intergenic (‑96/+35)	yddW ← / ← gadC	liprotein, glycosyl hydrolase homolog/glutamate:gamma‑aminobutyric acid antiporter
RA	1,587,669	A→G	5.2%	V22V (GTT→GTC) ‡	ydeQ ←	putative fimbrial‑like adhesin protein
RA	1,587,670	A→T	5.2%	V22D (GTT→GAT) ‡	ydeQ ←	putative fimbrial‑like adhesin protein
RA	1,587,671	C→T	5.1%	V22I (GTT→ATT) ‡	ydeQ ←	putative fimbrial‑like adhesin protein
RA	1,622,834	A→T	5.4%	noncoding (81/98 nt)	mgrR ←	sRNA antisense regulator down regulates YgdQ and EptB, PhoPQ‑regulated, Hfq‑dependent; affects sensitivity to antimicrobial peptides
RA	1,647,873	C→T	6.0%	intergenic (‑23/‑61)	dicC ← / → dicA	Qin prophage; DNA‑binding transcriptional regulator for DicB/Qin prophage; putative regulator for DicB
RA	1,666,470	C→A	6.7%	L386I (CTA→ATA)	clcB →	H(+)/Cl(‑) exchange transporter
RA	1,686,044	A→C	7.2%	V182G (GTC→GGC)	fumC ←	fumarate hydratase (fumarase C),aerobic Class II
RA	1,744,294	T→A	5.1%	F280I (TTT→ATT)	mdtK →	multidrug efflux system transporter
RA	1,747,153	G→T	7.2%	G8V (GGT→GTT)	ydhS →	putative oxidoreductase
RA	1,763,450	A→G	7.1%	V187A (GTG→GCG) ‡	sufB ←	component of SufBCD Fe‑S cluster assembly scaffold
RA	1,763,451	C→T	7.0%	V187M (GTG→ATG) ‡	sufB ←	component of SufBCD Fe‑S cluster assembly scaffold
RA	1,765,163	C→G	5.5%	intergenic (‑41/+59)	ydiH ← / ← menI	uncharacterized protein/1,4‑dihydroxy‑2‑naphthoyl‑CoA hydrolase
RA	1,769,943	G→A	6.7%	T290T (ACG→ACA)	ydiK →	UPF0118 family inner membrane protein
RA	1,770,387	C→T	6.6%	noncoding (16/106 nt)	rprA →	sRNA antisense activator for RpoS translation, Hfq‑dependent
RA	1,770,390	A→G	6.8%	noncoding (19/106 nt)	rprA →	sRNA antisense activator for RpoS translation, Hfq‑dependent
RA	1,787,558	C→G	5.7%	I38M (ATC→ATG)	ppsR →	PEP synthase kinase and PEP synthase pyrophosphorylase
RA	1,791,521	C→G	6.2%	S167T (AGT→ACT)	ydiV ←	anti‑FlhD4C2 factor, inactive EAL family phosphodiesterase
RA	1,791,528	C→T	6.4%	D165N (GAT→AAT)	ydiV ←	anti‑FlhD4C2 factor, inactive EAL family phosphodiesterase
RA	1,792,240	T→A	6.2%	intergenic (‑220/+27)	ydiV ← / ← nlpC	anti‑FlhD4C2 factor, inactive EAL family phosphodiesterase/putative C40 clan peptidase lipoprotein
RA	1,792,241	A→T	5.8%	intergenic (‑221/+26)	ydiV ← / ← nlpC	anti‑FlhD4C2 factor, inactive EAL family phosphodiesterase/putative C40 clan peptidase lipoprotein
RA	1,792,242	T→A	5.2%	intergenic (‑222/+25)	ydiV ← / ← nlpC	anti‑FlhD4C2 factor, inactive EAL family phosphodiesterase/putative C40 clan peptidase lipoprotein
RA	1,795,227	A→T	6.5%	intergenic (‑75/+26)	btuC ← / ← ihfA	vitamin B12 ABC transporter permease/integration host factor (IHF), DNA‑binding protein, alpha subunit
RA	1,795,228	G→C	7.0%	intergenic (‑76/+25)	btuC ← / ← ihfA	vitamin B12 ABC transporter permease/integration host factor (IHF), DNA‑binding protein, alpha subunit
RA	1,795,229	A→T	7.0%	intergenic (‑77/+24)	btuC ← / ← ihfA	vitamin B12 ABC transporter permease/integration host factor (IHF), DNA‑binding protein, alpha subunit
RA	1,814,962	C→T	7.3%	P366S (CCC→TCC)	katE →	catalase HPII, heme d‑containing
RA	1,821,241	T→A	6.2%	intergenic (‑27/+58)	chbC ← / ← chbB	N,N'‑diacetylchitobiose‑specific enzyme IIC component of PTS/N,N'‑diacetylchitobiose‑specific enzyme IIB component of PTS
RA	1,821,243	A→T	5.5%	intergenic (‑29/+56)	chbC ← / ← chbB	N,N'‑diacetylchitobiose‑specific enzyme IIC component of PTS/N,N'‑diacetylchitobiose‑specific enzyme IIB component of PTS
RA	1,821,244	A→T	5.8%	intergenic (‑30/+55)	chbC ← / ← chbB	N,N'‑diacetylchitobiose‑specific enzyme IIC component of PTS/N,N'‑diacetylchitobiose‑specific enzyme IIB component of PTS
RA	1,840,795	G→A	7.0%	L203L (CTC→CTT)	ynjF ←	CDP‑alcohol phosphatidyltransferase family inner membrane protein
RA	1,840,798	C→T	6.5%	S202S (TCG→TCA) ‡	ynjF ←	CDP‑alcohol phosphatidyltransferase family inner membrane protein
RA	1,840,799	G→C	7.3%	S202W (TCG→TGG) ‡	ynjF ←	CDP‑alcohol phosphatidyltransferase family inner membrane protein
RA	1,840,800	A→G	7.4%	S202P (TCG→CCG) ‡	ynjF ←	CDP‑alcohol phosphatidyltransferase family inner membrane protein
RA	1,840,803	T→C	7.2%	K201E (AAG→GAG)	ynjF ←	CDP‑alcohol phosphatidyltransferase family inner membrane protein
RA	1,860,607:1	+G	5.0%	coding (726/1077 nt)	ydjL ←	putative Zn‑dependent NAD(P)‑binding oxidoreductase
RA	1,868,859	Δ1 bp	6.5%	intergenic (+17/‑96)	yeaG → / → yeaH	protein kinase, endogenous substrate unidentified; autokinase/UPF0229 family protein
RA	1,868,865:1	+G	6.5%	intergenic (+23/‑90)	yeaG → / → yeaH	protein kinase, endogenous substrate unidentified; autokinase/UPF0229 family protein
RA	1,870,253	T→C	7.6%	intergenic (+15/‑132)	yeaH → / → yeaI	UPF0229 family protein/putative membrane‑anchored diguanylate cyclase
RA	1,870,254	C→G	7.7%	intergenic (+16/‑131)	yeaH → / → yeaI	UPF0229 family protein/putative membrane‑anchored diguanylate cyclase
RA	1,870,257	T→A	7.4%	intergenic (+19/‑128)	yeaH → / → yeaI	UPF0229 family protein/putative membrane‑anchored diguanylate cyclase
RA	1,870,260	C→G	7.6%	intergenic (+22/‑125)	yeaH → / → yeaI	UPF0229 family protein/putative membrane‑anchored diguanylate cyclase
RA	1,870,261	G→A	7.6%	intergenic (+23/‑124)	yeaH → / → yeaI	UPF0229 family protein/putative membrane‑anchored diguanylate cyclase
RA	1,885,805	T→A	7.5%	intergenic (+16/‑40)	yeaW → / → yeaX	putative YeaWX dioxygenase alpha subunit; 2Fe‑2S cluster/putative YeaWX dioxygenase beta subunit, reductase component
RA	1,885,807	T→A	6.9%	intergenic (+18/‑38)	yeaW → / → yeaX	putative YeaWX dioxygenase alpha subunit; 2Fe‑2S cluster/putative YeaWX dioxygenase beta subunit, reductase component
RA	1,885,808	T→A	6.9%	intergenic (+19/‑37)	yeaW → / → yeaX	putative YeaWX dioxygenase alpha subunit; 2Fe‑2S cluster/putative YeaWX dioxygenase beta subunit, reductase component
RA	1,885,810	T→A	6.8%	intergenic (+21/‑35)	yeaW → / → yeaX	putative YeaWX dioxygenase alpha subunit; 2Fe‑2S cluster/putative YeaWX dioxygenase beta subunit, reductase component
RA	1,912,749	T→A	5.2%	intergenic (‑173/+19)	htpX ← / ← prc	putative endopeptidase/carboxy‑terminal protease for penicillin‑binding protein 3
RA	1,912,750	T→A	5.2%	intergenic (‑174/+18)	htpX ← / ← prc	putative endopeptidase/carboxy‑terminal protease for penicillin‑binding protein 3
RA	1,912,751	C→A	5.4%	intergenic (‑175/+17)	htpX ← / ← prc	putative endopeptidase/carboxy‑terminal protease for penicillin‑binding protein 3
RA	1,933,843	G→T	5.9%	R254R (CGC→CGA)	edd ←	6‑phosphogluconate dehydratase
RA	1,933,858	C→T	6.1%	P249P (CCG→CCA)	edd ←	6‑phosphogluconate dehydratase
MC JC	1,978,503	Δ776 bp	100%		insB1–insA	insB1, insA
JC JC	1,979,486	IS5 (+) +4 bp	100%	intergenic (‑271/‑264)	insA ← / → uspC	IS1 repressor TnpA/universal stress protein
RA	1,987,442	Δ1 bp	6.4%	intergenic (+14/+65)	ftnB → / ← yecJ	ferritin B, putative ferrous iron reservoir/DUF2766 family protein
RA	1,987,450:1	+A	7.1%	intergenic (+22/+57)	ftnB → / ← yecJ	ferritin B, putative ferrous iron reservoir/DUF2766 family protein
RA	1,993,946	A→C	5.6%	V254G (GTT→GGT)	uvrC ←	excinuclease UvrABC, endonuclease subunit
RA	1,996,373	T→A	6.9%	M154L (ATG→TTG)	sdiA ←	quorum‑sensing transcriptional activator
RA	1,996,376	T→A	8.3%	K153* (AAA→TAA)	sdiA ←	quorum‑sensing transcriptional activator
RA	1,996,377	T→A	7.6%	L152F (TTA→TTT)	sdiA ←	quorum‑sensing transcriptional activator
RA	1,996,380	T→A	7.1%	Q151H (CAA→CAT)	sdiA ←	quorum‑sensing transcriptional activator
RA	2,012,153	T→A	5.8%	pseudogene (199/312 nt)	yedN ←	pseudogene, IpaH/YopM family
RA	2,012,158	A→T	6.0%	pseudogene (194/312 nt)	yedN ←	pseudogene, IpaH/YopM family
RA	2,012,159	A→T	5.6%	pseudogene (193/312 nt)	yedN ←	pseudogene, IpaH/YopM family
RA	2,012,164	T→A	6.1%	pseudogene (188/312 nt)	yedN ←	pseudogene, IpaH/YopM family
RA	2,028,799	A→G	6.9%	Y190H (TAC→CAC)	yedI ←	DUF808 family inner membrane protein
RA	2,028,801	A→G	6.8%	V189A (GTC→GCC)	yedI ←	DUF808 family inner membrane protein
RA	2,028,804	C→T	6.8%	G188D (GGC→GAC)	yedI ←	DUF808 family inner membrane protein
RA	2,028,806	C→T	6.8%	V187V (GTG→GTA)	yedI ←	DUF808 family inner membrane protein
RA	2,059,948	T→A	5.7%	intergenic (+22/+16)	asnU → / ← cbl	tRNA‑Asn/ssuEADCB/tauABCD operon transcriptional activator
RA	2,103,105	C→A	5.3%	pseudogene (285/446 nt)	wbbL ←	pseudogene, lipopolysaccharide biosynthesis protein
RA	2,106,959	A→T	5.1%	Y90N (TAT→AAT)	wbbH ←	O‑antigen polymerase
RA	2,129,907	T→A	5.6%	I324I (ATA→ATT)	wcaD ←	putative colanic acid polymerase
RA	2,147,351	T→A	5.5%	S64C (AGT→TGT)	alkA ←	3‑methyl‑adenine DNA glycosylase II
RA	2,158,885	C→G	5.3%	S167W (TCG→TGG) ‡	mdtC →	multidrug efflux system, subunit C
RA	2,158,886	G→C	5.3%	S167S (TCG→TCC) ‡	mdtC →	multidrug efflux system, subunit C
RA	2,158,887	C→G	5.5%	Q168E (CAA→GAA)	mdtC →	multidrug efflux system, subunit C
RA	2,168,423	A→T	5.7%	intergenic (‑117/‑289)	yegR ← / → yegS	uncharacterized protein/phosphatidylglycerol kinase, metal‑dependent
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	2,245,143	A→G	7.7%	W543R (TGG→CGG)	cirA ←	colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter
RA	2,245,148	T→A	8.9%	D541V (GAT→GTT)	cirA ←	colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter
RA	2,245,151	T→A	7.7%	N540I (AAC→ATC)	cirA ←	colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter
RA	2,245,156	C→T	7.1%	P538P (CCG→CCA)	cirA ←	colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter
RA	2,259,549	A→T	5.5%	intergenic (‑253/+170)	psuK ← / ← fruA	pseudouridine kinase/fused fructose‑specific PTS enzymes: IIBcomponent/IIC components
RA	2,259,550	A→T	6.2%	intergenic (‑254/+169)	psuK ← / ← fruA	pseudouridine kinase/fused fructose‑specific PTS enzymes: IIBcomponent/IIC components
RA	2,259,553	A→T	6.0%	intergenic (‑257/+166)	psuK ← / ← fruA	pseudouridine kinase/fused fructose‑specific PTS enzymes: IIBcomponent/IIC components
RA	2,259,554	A→T	5.6%	intergenic (‑258/+165)	psuK ← / ← fruA	pseudouridine kinase/fused fructose‑specific PTS enzymes: IIBcomponent/IIC components
RA	2,286,139	A→T	6.1%	intergenic (+3/‑72)	yejM → / → proL	essential inner membrane DUF3413 domain‑containing protein; lipid A production and membrane permeability factor/tRNA‑Pro
RA	2,366,010:1	+T	5.2%	coding (83/1140 nt)	arnB →	uridine 5'‑(beta‑1‑threo‑pentapyranosyl‑4‑ulose diphosphate) aminotransferase, PLP‑dependent
RA	2,366,015	Δ1 bp	5.3%	coding (88/1140 nt)	arnB →	uridine 5'‑(beta‑1‑threo‑pentapyranosyl‑4‑ulose diphosphate) aminotransferase, PLP‑dependent
RA	2,373,180	T→C	5.1%	W97R (TGG→CGG)	arnF →	undecaprenyl phosphate‑alpha‑L‑ara4N exporter; flippase ArnEF subunit
RA	2,378,144	C→A	6.1%	L372L (CTG→CTT) ‡	menD ←	2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylate synthase; SEPHCHC synthase
RA	2,378,146	G→C	7.1%	L372V (CTG→GTG) ‡	menD ←	2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylate synthase; SEPHCHC synthase
RA	2,378,148	T→G	6.0%	Q371P (CAA→CCA)	menD ←	2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylate synthase; SEPHCHC synthase
RA	2,383,959	A→T	5.1%	intergenic (+35/+36)	elaD → / ← yfbK	protease, capable of cleaving an AMC‑ubiquitin model substrate/Von Willebrand factor domain putative lipoprotein
RA	2,390,016:1	+C	5.0%	intergenic (+52/+32)	yfbP → / ← nuoN	TPR‑like repeats‑containing protein/NADH:ubiquinone oxidoreductase, membrane subunit N
RA	2,392,498	C→G	5.0%	G182R (GGC→CGC)	nuoM ←	NADH:ubiquinone oxidoreductase, membrane subunit M
RA	2,411,408	A→T	5.8%	intergenic (‑56/+31)	yfbS ← / ← yfbT	putative transporter/sugar phosphatas
RA	2,411,410	G→T	6.0%	intergenic (‑58/+29)	yfbS ← / ← yfbT	putative transporter/sugar phosphatas
RA	2,411,411	A→C	6.6%	intergenic (‑59/+28)	yfbS ← / ← yfbT	putative transporter/sugar phosphatas
RA	2,411,413	A→T	5.7%	intergenic (‑61/+26)	yfbS ← / ← yfbT	putative transporter/sugar phosphatas
RA	2,425,968	T→G	6.8%	intergenic (‑52/+38)	hisQ ← / ← hisJ	histidine ABC transporter permease/histidine ABC transporter periplasmic binding protein
RA	2,425,971	C→A	6.3%	intergenic (‑55/+35)	hisQ ← / ← hisJ	histidine ABC transporter permease/histidine ABC transporter periplasmic binding protein
RA	2,440,295	A→T	5.1%	intergenic (‑175/+90)	yfcJ ← / ← fabB	putative arabinose efflux transporter/3‑oxoacyl‑[acyl‑carrier‑protein] synthase I
RA	2,440,296	T→G	5.6%	intergenic (‑176/+89)	yfcJ ← / ← fabB	putative arabinose efflux transporter/3‑oxoacyl‑[acyl‑carrier‑protein] synthase I
RA	2,440,297	C→A	5.1%	intergenic (‑177/+88)	yfcJ ← / ← fabB	putative arabinose efflux transporter/3‑oxoacyl‑[acyl‑carrier‑protein] synthase I
RA	2,440,298	A→T	5.0%	intergenic (‑178/+87)	yfcJ ← / ← fabB	putative arabinose efflux transporter/3‑oxoacyl‑[acyl‑carrier‑protein] synthase I
RA	2,462,677	A→T	5.7%	intergenic (+31/‑335)	fadL → / → yfdF	long‑chain fatty acid outer membrane transporter/uncharacterized protein
RA	2,462,678	T→A	6.1%	intergenic (+32/‑334)	fadL → / → yfdF	long‑chain fatty acid outer membrane transporter/uncharacterized protein
RA	2,462,679	A→T	5.7%	intergenic (+33/‑333)	fadL → / → yfdF	long‑chain fatty acid outer membrane transporter/uncharacterized protein
RA	2,493,562	T→A	5.6%	intergenic (‑308/+205)	frc ← / ← yfdX	formyl‑CoA transferase, NAD(P)‑binding/uncharacterized protein
RA	2,493,563	T→A	5.4%	intergenic (‑309/+204)	frc ← / ← yfdX	formyl‑CoA transferase, NAD(P)‑binding/uncharacterized protein
RA	2,511,417	A→G	6.3%	intergenic (+90/+51)	ypeC → / ← mntH	DUF2502 family putative periplasmic protein/manganese/divalent cation transporter
RA	2,511,418	A→C	6.0%	intergenic (+91/+50)	ypeC → / ← mntH	DUF2502 family putative periplasmic protein/manganese/divalent cation transporter
RA	2,511,424	T→A	6.4%	intergenic (+97/+44)	ypeC → / ← mntH	DUF2502 family putative periplasmic protein/manganese/divalent cation transporter
RA	2,511,425	T→A	6.4%	intergenic (+98/+43)	ypeC → / ← mntH	DUF2502 family putative periplasmic protein/manganese/divalent cation transporter
RA	2,519,838	G→T	6.6%	R279S (CGT→AGT)	gltX ←	glutamyl‑tRNA synthetase
RA	2,561,018	C→A	19.3%	intergenic (+120/‑350)	yffL → / → yffM	CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein
RA	2,567,505	C→G	5.4%	P201P (CCG→CCC)	eutH ←	ethanolamine transporter
RA	2,596,873	Δ1 bp	5.7%	intergenic (‑136/+32)	ypfJ ← / ← purC	putative neutral zinc metallopeptidase/phosphoribosylaminoimidazole‑succinocarboxamide synthetase
RA	2,596,878:1	+G	5.9%	intergenic (‑141/+27)	ypfJ ← / ← purC	putative neutral zinc metallopeptidase/phosphoribosylaminoimidazole‑succinocarboxamide synthetase
RA	2,652,131	G→T	7.5%	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	7.8%	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	7.8%	V52G (GTG→GGG) ‡	yfhM ←	bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein
RA	2,655,149	C→A	5.5%	A404S (GCG→TCG)	pepB ←	aminopeptidase B
RA	2,655,150	T→C	5.6%	K403K (AAA→AAG)	pepB ←	aminopeptidase B
RA	2,655,155	G→C	5.4%	R402G (CGT→GGT)	pepB ←	aminopeptidase B
RA	2,655,161	T→G	5.2%	T400P (ACT→CCT)	pepB ←	aminopeptidase B
RA	2,657,426	G→A	6.2%	L504L (CTG→TTG)	hscA ←	DnaK‑like molecular chaperone specific for IscU
RA	2,657,432	A→C	5.7%	Y502D (TAC→GAC)	hscA ←	DnaK‑like molecular chaperone specific for IscU
RA	2,657,433	A→T	5.7%	S501S (TCT→TCA) ‡	hscA ←	DnaK‑like molecular chaperone specific for IscU
RA	2,657,434	G→T	5.7%	S501Y (TCT→TAT) ‡	hscA ←	DnaK‑like molecular chaperone specific for IscU
RA	2,657,440	T→C	5.7%	K499R (AAA→AGA)	hscA ←	DnaK‑like molecular chaperone specific for IscU
RA	2,658,447	G→C	5.7%	A163A (GCC→GCG) ‡	hscA ←	DnaK‑like molecular chaperone specific for IscU
RA	2,658,448	G→C	5.7%	A163G (GCC→GGC) ‡	hscA ←	DnaK‑like molecular chaperone specific for IscU
RA	2,659,407	T→G	6.7%	S21R (AGC→CGC)	hscB ←	HscA co‑chaperone, J domain‑containing protein Hsc56; IscU‑specific chaperone HscAB
RA	2,667,359	A→T	6.9%	L163* (TTG→TAG)	hcaT ←	putative 3‑phenylpropionic transporter
RA	2,687,212	G→C	7.2%	P66R (CCG→CGG)	glnB ←	regulatory protein P‑II for glutamine synthetase
RA	2,687,214	T→G	7.0%	V65V (GTA→GTC)	glnB ←	regulatory protein P‑II for glutamine synthetase
RA	2,691,169	A→T	8.9%	noncoding (172/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,691,171	T→A	9.1%	noncoding (170/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,691,173	A→T	8.1%	noncoding (168/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,707,320	A→T	7.3%	intergenic (‑196/+2)	lepA ← / ← rseC	back‑translocating elongation factor EF4, GTPase/SoxR iron‑sulfur cluster reduction factor component
RA	2,707,321	A→T	7.3%	intergenic (‑197/+1)	lepA ← / ← rseC	back‑translocating elongation factor EF4, GTPase/SoxR iron‑sulfur cluster reduction factor component
RA	2,713,655	T→G	5.7%	F254V (TTT→GTT)	srmB →	ATP‑dependent RNA helicase
RA	2,714,415	C→T	7.1%	intergenic (+185/+24)	srmB → / ← yfiE	ATP‑dependent RNA helicase/putative DNA‑binding transcriptional regulator
RA	2,714,420	T→A	9.0%	intergenic (+190/+19)	srmB → / ← yfiE	ATP‑dependent RNA helicase/putative DNA‑binding transcriptional regulator
RA	2,714,425	T→A	9.0%	intergenic (+195/+14)	srmB → / ← yfiE	ATP‑dependent RNA helicase/putative DNA‑binding transcriptional regulator
RA	2,714,430	A→G	8.5%	intergenic (+200/+9)	srmB → / ← yfiE	ATP‑dependent RNA helicase/putative DNA‑binding transcriptional regulator
RA	2,748,848	G→T	6.1%	G25G (GGG→GGT)	yfjD →	UPF0053 family inner membrane protein
RA	2,748,850	C→T	6.0%	S26F (TCC→TTC)	yfjD →	UPF0053 family inner membrane protein
RA	2,748,853	A→G	5.9%	E27G (GAA→GGA)	yfjD →	UPF0053 family inner membrane protein
RA	2,748,855	A→C	5.4%	T28P (ACC→CCC)	yfjD →	UPF0053 family inner membrane protein
RA	2,758,920	C→T	5.2%	intergenic (+64/‑65)	alpA → / → yfjI	CP4‑57 prophage; DNA‑binding transcriptional activator/CP4‑57 prophage; uncharacterized protein
RA	2,758,927	A→G	5.1%	intergenic (+71/‑58)	alpA → / → yfjI	CP4‑57 prophage; DNA‑binding transcriptional activator/CP4‑57 prophage; uncharacterized protein
RA	2,804,528	C→A	9.4%	intergenic (+67/‑287)	nrdF → / → proV	ribonucleoside‑diphosphate reductase 2, beta subunit, ferritin‑like protein/glycine betaine/proline ABC transporter periplasmic binding protein
RA	2,809,784	C→A	7.1%	I56I (ATC→ATA)	ygaZ →	putative L‑valine exporter, norvaline resistance protein
RA	2,814,174	T→A	9.5%	intergenic (+20/+44)	emrB → / ← luxS	multidrug efflux system protein/S‑ribosylhomocysteine lyase
RA	2,814,175	T→A	9.5%	intergenic (+21/+43)	emrB → / ← luxS	multidrug efflux system protein/S‑ribosylhomocysteine lyase
RA	2,838,222	A→T	7.8%	intergenic (‑117/+32)	hydN ← / ← ascG	formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit/asc operon transcriptional repressor; prpBC operon repressor
RA	2,839,321	C→G	6.2%	intergenic (‑57/‑203)	ascG ← / → ascF	asc operon transcriptional repressor; prpBC operon repressor/cellobiose/arbutin/salicin‑specific PTS enzymes, IIB and IC components
RA	2,839,324	T→A	5.3%	intergenic (‑60/‑200)	ascG ← / → ascF	asc operon transcriptional repressor; prpBC operon repressor/cellobiose/arbutin/salicin‑specific PTS enzymes, IIB and IC components
RA	2,839,326	C→G	5.0%	intergenic (‑62/‑198)	ascG ← / → ascF	asc operon transcriptional repressor; prpBC operon repressor/cellobiose/arbutin/salicin‑specific PTS enzymes, IIB and IC components
RA	2,873,915	A→G	5.8%	H26H (CAT→CAC) ‡	cysC ←	adenosine 5'‑phosphosulfate kinase
RA	2,873,917	G→C	5.8%	H26D (CAT→GAT) ‡	cysC ←	adenosine 5'‑phosphosulfate kinase
RA	2,873,919	C→T	5.9%	G25D (GGT→GAT)	cysC ←	adenosine 5'‑phosphosulfate kinase
RA	2,874,306	G→A	6.6%	R372C (CGC→TGC)	cysN ←	sulfate adenylyltransferase, subunit 1
RA	2,894,845	G→A	7.3%	intergenic (+74/+74)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,894,846	C→A	7.1%	intergenic (+75/+73)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,894,852	T→G	8.8%	intergenic (+81/+67)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,894,854	G→C	8.7%	intergenic (+83/+65)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,894,856	C→A	9.9%	intergenic (+85/+63)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,894,862	T→G	8.9%	intergenic (+91/+57)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,894,863	T→C	8.8%	intergenic (+92/+56)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,900,322	C→T	7.4%	intergenic (‑49/‑270)	ygcW ← / → yqcE	putative SDR family oxidoreductase/putative MFS transporter, inner membrane protein
RA	2,900,324	G→T	7.2%	intergenic (‑51/‑268)	ygcW ← / → yqcE	putative SDR family oxidoreductase/putative MFS transporter, inner membrane protein
RA	2,900,327	A→C	7.5%	intergenic (‑54/‑265)	ygcW ← / → yqcE	putative SDR family oxidoreductase/putative MFS transporter, inner membrane protein
RA	2,960,928	C→G	5.3%	G501R (GGC→CGC)	recC ←	exonuclease V (RecBCD complex), gamma chain
RA	2,960,930	G→C	5.3%	S500C (TCC→TGC)	recC ←	exonuclease V (RecBCD complex), gamma chain
RA	2,976,754	T→G	6.3%	R52R (CGT→CGG)	galR →	galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor
RA	2,995,556	C→A	6.5%	pseudogene (205/447 nt)	ygeN ←	pseudogene, orgB family, part of T3SS PAI ETT2 remnant
RA	2,995,557	A→T	6.5%	pseudogene (204/447 nt)	ygeN ←	pseudogene, orgB family, part of T3SS PAI ETT2 remnant
RA	2,995,558	T→G	6.2%	pseudogene (203/447 nt)	ygeN ←	pseudogene, orgB family, part of T3SS PAI ETT2 remnant
RA	3,020,510	G→T	7.4%	intergenic (+21/‑30)	ssnA → / → ygfM	putative chlorohydrolase/aminohydrolase/putative oxidoreductase
RA	3,020,511	C→G	7.6%	intergenic (+22/‑29)	ssnA → / → ygfM	putative chlorohydrolase/aminohydrolase/putative oxidoreductase
RA	3,020,512	A→C	7.6%	intergenic (+23/‑28)	ssnA → / → ygfM	putative chlorohydrolase/aminohydrolase/putative oxidoreductase
RA	3,033,624	A→G	5.2%	intergenic (+11/+33)	idi → / ← lysS	isopentenyl diphosphate isomerase/lysine tRNA synthetase, constitutive
RA	3,033,628	T→A	5.2%	intergenic (+15/+29)	idi → / ← lysS	isopentenyl diphosphate isomerase/lysine tRNA synthetase, constitutive
RA	3,057,140	A→G	5.4%	intergenic (+152/+38)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,057,145	G→C	5.4%	intergenic (+157/+33)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,058,651	G→A	6.4%	intergenic (‑241/+15)	serA ← / ← rpiA	D‑3‑phosphoglycerate dehydrogenase/ribose 5‑phosphate isomerase, constitutive
RA	3,058,652	G→C	6.4%	intergenic (‑242/+14)	serA ← / ← rpiA	D‑3‑phosphoglycerate dehydrogenase/ribose 5‑phosphate isomerase, constitutive
RA	3,058,653	T→C	6.5%	intergenic (‑243/+13)	serA ← / ← rpiA	D‑3‑phosphoglycerate dehydrogenase/ribose 5‑phosphate isomerase, constitutive
RA	3,068,922	G→T	5.4%	intergenic (‑114/+25)	argO ← / ← mscS	arginine transporter/mechanosensitive channel protein, small conductance
RA	3,068,924	G→A	6.0%	intergenic (‑116/+23)	argO ← / ← mscS	arginine transporter/mechanosensitive channel protein, small conductance
RA	3,068,927	T→C	6.0%	intergenic (‑119/+20)	argO ← / ← mscS	arginine transporter/mechanosensitive channel protein, small conductance
RA	3,068,929	A→C	6.1%	intergenic (‑121/+18)	argO ← / ← mscS	arginine transporter/mechanosensitive channel protein, small conductance
RA	3,092,779	Δ1 bp	6.8%	coding (902/951 nt)	gshB →	glutathione synthetase
RA	3,114,881	A→C	5.2%	L1411R (CTG→CGG) ‡	sslE ←	putative secreted and surface‑associated lipoprotein mucinase
RA	3,114,882	G→T	5.1%	L1411M (CTG→ATG) ‡	sslE ←	putative secreted and surface‑associated lipoprotein mucinase
RA	3,155,227	C→A	5.8%	intergenic (‑9/‑128)	yqhC ← / → yqhD	transcriptional activator of yqhD/aldehyde reductase, NADPH‑dependent
RA	3,155,228	A→G	5.4%	intergenic (‑10/‑127)	yqhC ← / → yqhD	transcriptional activator of yqhD/aldehyde reductase, NADPH‑dependent
RA	3,155,229	C→T	5.6%	intergenic (‑11/‑126)	yqhC ← / → yqhD	transcriptional activator of yqhD/aldehyde reductase, NADPH‑dependent
RA	3,155,230	T→G	5.6%	intergenic (‑12/‑125)	yqhC ← / → yqhD	transcriptional activator of yqhD/aldehyde reductase, NADPH‑dependent
RA	3,156,590	C→A	8.9%	intergenic (+72/‑33)	yqhD → / → dkgA	aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A
RA	3,156,591	T→G	9.8%	intergenic (+73/‑32)	yqhD → / → dkgA	aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A
RA	3,171,852	C→T	6.6%	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	6.5%	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	5.9%	intergenic (+30/+16)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,180,505	G→T	7.4%	E29* (GAG→TAG) ‡	ygiC →	ATP‑Grasp family ATPase
RA	3,180,506	A→C	8.6%	E29A (GAG→GCG) ‡	ygiC →	ATP‑Grasp family ATPase
RA	3,183,345:1	+T	8.2%	intergenic (+22/+468)	zupT → / ← ribB	zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase
RA	3,183,350	Δ1 bp	8.0%	intergenic (+27/+463)	zupT → / ← ribB	zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase
RA	3,213,816	A→G	5.7%	K257R (AAA→AGA)	rpoD →	RNA polymerase, sigma 70 (sigma D) factor
RA	3,250,989	G→C	9.0%	intergenic (+35/‑35)	yqjF → / → yqjG	putative quinol oxidase subunit/putative S‑transferase
RA	3,250,990	A→T	8.9%	intergenic (+36/‑34)	yqjF → / → yqjG	putative quinol oxidase subunit/putative S‑transferase
RA	3,250,991	A→T	8.8%	intergenic (+37/‑33)	yqjF → / → yqjG	putative quinol oxidase subunit/putative S‑transferase
RA	3,250,992	G→C	8.8%	intergenic (+38/‑32)	yqjF → / → yqjG	putative quinol oxidase subunit/putative S‑transferase
RA	3,283,024	C→T	5.2%	A350V (GCA→GTA)	agaS →	tagatose‑6‑phosphate ketose/aldose isomerase
RA	3,288,032	C→A	7.7%	intergenic (+22/‑58)	yraH → / → yraI	putative fimbrial‑like adhesin protein/putative periplasmic pilin chaperone
RA	3,288,033	T→G	7.6%	intergenic (+23/‑57)	yraH → / → yraI	putative fimbrial‑like adhesin protein/putative periplasmic pilin chaperone
RA	3,310,602	A→G	5.3%	V189V (GTT→GTC)	pnp ←	polynucleotide phosphorylase/polyadenylase
RA	3,313,756	A→T	6.1%	S753S (TCT→TCA)	infB ←	translation initiation factor IF‑2
RA	3,313,759	G→T	7.0%	A752A (GCC→GCA)	infB ←	translation initiation factor IF‑2
RA	3,313,762	A→C	6.5%	D751E (GAT→GAG)	infB ←	translation initiation factor IF‑2
RA	3,313,765	A→T	6.9%	A750A (GCT→GCA)	infB ←	translation initiation factor IF‑2
RA	3,316,757	G→T	6.6%	A257E (GCG→GAG)	nusA ←	transcription termination/antitermination L factor
RA	3,322,698	A→G	5.1%	intergenic (‑193/+35)	secG ← / ← glmM	preprotein translocase membrane subunit/phosphoglucosamine mutase
RA	3,322,703	C→T	5.0%	intergenic (‑198/+30)	secG ← / ← glmM	preprotein translocase membrane subunit/phosphoglucosamine mutase
RA	3,322,705	C→T	5.1%	intergenic (‑200/+28)	secG ← / ← glmM	preprotein translocase membrane subunit/phosphoglucosamine mutase
RA	3,359,685	A→G	6.9%	D163G (GAT→GGT)	gltD →	glutamate synthase, 4Fe‑4S protein, small subunit
RA	3,362,956	C→A	12.7%	S50S (TCC→TCA)	yhcD →	putative outer membrane fimbrial subunit usher protein
RA	3,368,173	C→T	5.1%	P116L (CCG→CTG)	yhcG →	DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily
RA	3,368,180	A→G	5.2%	T118T (ACA→ACG)	yhcG →	DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily
RA	3,368,181	C→G	5.0%	P119A (CCG→GCG)	yhcG →	DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily
RA	3,368,189	A→G	5.1%	A121A (GCA→GCG)	yhcG →	DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily
RA	3,437,908	T→A	5.3%	intergenic (+14/‑116)	trkA → / → mscL	NAD‑binding component of TrK potassium transporter/mechanosensitive channel protein, high conductance
RA	3,437,909	A→T	5.3%	intergenic (+15/‑115)	trkA → / → mscL	NAD‑binding component of TrK potassium transporter/mechanosensitive channel protein, high conductance
RA	3,437,910	A→T	5.0%	intergenic (+16/‑114)	trkA → / → mscL	NAD‑binding component of TrK potassium transporter/mechanosensitive channel protein, high conductance
RA	3,437,911	T→A	5.0%	intergenic (+17/‑113)	trkA → / → mscL	NAD‑binding component of TrK potassium transporter/mechanosensitive channel protein, high conductance
RA	3,439,588	G→C	7.2%	intergenic (‑79/+28)	yhdN ← / ← rplQ	DUF1992 family protein/50S ribosomal subunit protein L17
RA	3,439,589	G→C	7.3%	intergenic (‑80/+27)	yhdN ← / ← rplQ	DUF1992 family protein/50S ribosomal subunit protein L17
RA	3,451,404	T→G	6.4%	D94A (GAC→GCC)	rplW ←	50S ribosomal subunit protein L23
RA	3,451,410	T→A	6.9%	N92I (AAT→ATT)	rplW ←	50S ribosomal subunit protein L23
RA	3,451,416	C→A	6.6%	G90V (GGC→GTC)	rplW ←	50S ribosomal subunit protein L23
RA	3,458,110	C→A	100%	T578T (ACC→ACA)	gspD →	general secretory pathway component, cryptic
RA	3,482,325	G→A	100%	R346H (CGC→CAC)	yheS →	ABC‑F family protein predicted regulatory ATPase
RA	3,549,769	Δ1 bp	5.6%	coding (302/2085 nt)	malQ ←	4‑alpha‑glucanotransferase (amylomaltase)
RA	3,560,081	C→T	5.4%	pseudogene (373/606 nt)	glpR ←	pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon
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	3,642,358	T→A	8.2%	intergenic (+27/+22)	dtpB → / ← rsmJ	dipeptide and tripeptide permease B/16S rRNA m(2)G1516 methyltransferase, SAM‑dependent
RA	3,642,361	T→A	8.1%	intergenic (+30/+19)	dtpB → / ← rsmJ	dipeptide and tripeptide permease B/16S rRNA m(2)G1516 methyltransferase, SAM‑dependent
RA	3,655,922	C→T	6.7%	intergenic (‑20/+44)	yhiD ← / ← hdeB	putative Mg(2+) transport ATPase, inner membrane protein/acid‑resistance protein
RA	3,655,929	A→T	6.2%	intergenic (‑27/+37)	yhiD ← / ← hdeB	putative Mg(2+) transport ATPase, inner membrane protein/acid‑resistance protein
RA	3,655,934	T→C	5.6%	intergenic (‑32/+32)	yhiD ← / ← hdeB	putative Mg(2+) transport ATPase, inner membrane protein/acid‑resistance protein
RA	3,655,944	A→G	5.3%	intergenic (‑42/+22)	yhiD ← / ← hdeB	putative Mg(2+) transport ATPase, inner membrane protein/acid‑resistance protein
RA	3,657,599	T→A	9.2%	intergenic (+32/+387)	hdeD → / ← arrS	acid‑resistance membrane protein/antisense sRNA ArrS, function unknown
RA	3,657,601	G→C	9.0%	intergenic (+34/+385)	hdeD → / ← arrS	acid‑resistance membrane protein/antisense sRNA ArrS, function unknown
RA	3,657,603	T→A	8.7%	intergenic (+36/+383)	hdeD → / ← arrS	acid‑resistance membrane protein/antisense sRNA ArrS, function unknown
RA	3,663,547	T→C	5.5%	intergenic (+20/+343)	mdtF → / ← gadW	anaerobic multidrug efflux transporter, ArcA‑regulated/transcriptional activator of gadA and gadBC; repressor of gadX
RA	3,757,942	C→A	5.4%	intergenic (‑115/+75)	yiaY ← / ← selB	L‑threonine dehydrogenase/selenocysteinyl‑tRNA‑specific translation factor
RA	3,758,650	A→G	6.6%	I404I (ATT→ATC) ‡	selB ←	selenocysteinyl‑tRNA‑specific translation factor
RA	3,758,651	A→T	6.4%	I404N (ATT→AAT) ‡	selB ←	selenocysteinyl‑tRNA‑specific translation factor
RA	3,758,656	A→T	5.1%	G402G (GGT→GGA)	selB ←	selenocysteinyl‑tRNA‑specific translation factor
RA	3,792,765	C→T	7.6%	intergenic (‑214/+61)	kbl ← / ← yibB	glycine C‑acetyltransferase/YibB family protein, function unknown
RA	3,792,766	A→T	7.8%	intergenic (‑215/+60)	kbl ← / ← yibB	glycine C‑acetyltransferase/YibB family protein, function unknown
RA	3,792,767	A→T	7.3%	intergenic (‑216/+59)	kbl ← / ← yibB	glycine C‑acetyltransferase/YibB family protein, function unknown
RA	3,792,768	A→G	7.3%	intergenic (‑217/+58)	kbl ← / ← yibB	glycine C‑acetyltransferase/YibB family protein, function unknown
RA	3,793,103	C→G	7.0%	G194A (GGC→GCC)	yibB ←	YibB family protein, function unknown
RA	3,796,006	T→C	7.5%	S10P (TCG→CCG) ‡	waaC →	ADP‑heptose:LPS heptosyl transferase I
RA	3,796,008	G→C	7.3%	S10S (TCG→TCC) ‡	waaC →	ADP‑heptose:LPS heptosyl transferase I
RA	3,796,011	G→C	7.3%	M11I (ATG→ATC)	waaC →	ADP‑heptose:LPS heptosyl transferase I
RA	3,796,013	G→A	7.4%	G12D (GGC→GAC)	waaC →	ADP‑heptose:LPS heptosyl transferase I
RA	3,815,068	T→A	6.8%	L192Q (CTA→CAA)	slmA →	nucleoid occlusion factor, anti‑FtsZ division inhibitor
RA	3,815,070	A→T	6.6%	I193F (ATT→TTT) ‡	slmA →	nucleoid occlusion factor, anti‑FtsZ division inhibitor
RA	3,815,072	T→A	6.7%	I193I (ATT→ATA) ‡	slmA →	nucleoid occlusion factor, anti‑FtsZ division inhibitor
MC JC	3,815,859	Δ82 bp	100%		[rph]–[rph]	[rph], [rph]
RA	3,871,344	C→G	5.4%	V129V (GTG→GTC)	dgoT ←	D‑galactonate transporter
RA	3,874,048	T→G	5.1%	K143Q (AAA→CAA)	dgoK ←	2‑oxo‑3‑deoxygalactonate kinase
RA	3,874,049	G→C	5.1%	C142W (TGC→TGG) ‡	dgoK ←	2‑oxo‑3‑deoxygalactonate kinase
RA	3,874,050	C→A	5.2%	C142F (TGC→TTC) ‡	dgoK ←	2‑oxo‑3‑deoxygalactonate kinase
RA	3,880,374	A→T	5.9%	L283Q (CTG→CAG) ‡	recF ←	gap repair protein
RA	3,880,375	G→T	6.1%	L283M (CTG→ATG) ‡	recF ←	gap repair protein
RA	3,880,380	A→C	5.8%	L281* (TTA→TGA) ‡	recF ←	gap repair protein
RA	3,880,381	A→T	5.2%	L281I (TTA→ATA) ‡	recF ←	gap repair protein
RA	3,906,826	T→C	7.0%	intergenic (‑259/+27)	bglG ← / ← phoU	transcriptional antiterminator of the bgl operon/negative regulator of PhoR/PhoB two‑component regulator
RA	3,906,828	A→T	7.0%	intergenic (‑261/+25)	bglG ← / ← phoU	transcriptional antiterminator of the bgl operon/negative regulator of PhoR/PhoB two‑component regulator
RA	3,906,830	G→A	7.4%	intergenic (‑263/+23)	bglG ← / ← phoU	transcriptional antiterminator of the bgl operon/negative regulator of PhoR/PhoB two‑component regulator
RA	3,907,726	T→G	5.6%	Q214P (CAG→CCG)	pstB ←	phosphate ABC transporter ATPase
RA	3,953,432	C→T	6.2%	intergenic (+19/‑46)	ilvE → / → ilvD	branched‑chain amino acid aminotransferase/dihydroxyacid dehydratase
RA	3,953,433	A→G	6.3%	intergenic (+20/‑45)	ilvE → / → ilvD	branched‑chain amino acid aminotransferase/dihydroxyacid dehydratase
RA	3,953,436	C→T	6.2%	intergenic (+23/‑42)	ilvE → / → ilvD	branched‑chain amino acid aminotransferase/dihydroxyacid dehydratase
RA	3,953,437	A→G	6.2%	intergenic (+24/‑41)	ilvE → / → ilvD	branched‑chain amino acid aminotransferase/dihydroxyacid dehydratase
RA	3,959,515	T→A	6.9%	intergenic (+70/+17)	ilvC → / ← ppiC	ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C)
RA	3,967,302	C→T	19.0%	R296C (CGT→TGT)	rho →	transcription termination factor
RA	3,967,553	A→T	7.1%	K379N (AAA→AAT)	rho →	transcription termination factor
RA	3,981,102	T→A	6.0%	V72V (GTT→GTA)	yifK →	putative APC family amino acid transporter
RA	3,989,188	A→T	5.5%	V214D (GTC→GAC)	hemD ←	uroporphyrinogen III synthase
RA	3,989,193	C→T	5.7%	L212L (TTG→TTA) ‡	hemD ←	uroporphyrinogen III synthase
RA	3,989,195	A→T	6.0%	L212M (TTG→ATG) ‡	hemD ←	uroporphyrinogen III synthase
RA	3,989,197	A→G	5.9%	L211P (CTA→CCA)	hemD ←	uroporphyrinogen III synthase
RA	3,989,202	A→T	5.6%	C209* (TGT→TGA)	hemD ←	uroporphyrinogen III synthase
RA	4,007,485	A→G	5.7%	K541R (AAA→AGA) ‡	recQ →	ATP‑dependent DNA helicase
RA	4,007,486	A→T	5.8%	K541N (AAA→AAT) ‡	recQ →	ATP‑dependent DNA helicase
RA	4,007,487	C→T	5.7%	L542L (CTG→TTG)	recQ →	ATP‑dependent DNA helicase
RA	4,008,408	A→G	5.7%	intergenic (+31/+31)	rhtC → / ← rhtB	threonine efflux pump/homoserine, homoserine lactone and S‑methyl‑methionine efflux pump
RA	4,008,409	A→C	5.8%	intergenic (+32/+30)	rhtC → / ← rhtB	threonine efflux pump/homoserine, homoserine lactone and S‑methyl‑methionine efflux pump
RA	4,008,415	T→A	7.6%	intergenic (+38/+24)	rhtC → / ← rhtB	threonine efflux pump/homoserine, homoserine lactone and S‑methyl‑methionine efflux pump
RA	4,008,416	T→A	7.7%	intergenic (+39/+23)	rhtC → / ← rhtB	threonine efflux pump/homoserine, homoserine lactone and S‑methyl‑methionine efflux pump
RA	4,008,422	G→T	6.2%	intergenic (+45/+17)	rhtC → / ← rhtB	threonine efflux pump/homoserine, homoserine lactone and S‑methyl‑methionine efflux pump
RA	4,008,423	C→T	5.8%	intergenic (+46/+16)	rhtC → / ← rhtB	threonine efflux pump/homoserine, homoserine lactone and S‑methyl‑methionine efflux pump
RA	4,009,762	C→A	6.6%	T198N (ACC→AAC)	pldB →	lysophospholipase L2
RA	4,009,765	G→C	7.1%	G199A (GGG→GCG)	pldB →	lysophospholipase L2
RA	4,009,770	T→C	6.3%	W201R (TGG→CGG) ‡	pldB →	lysophospholipase L2
RA	4,009,771	G→A	6.3%	W201* (TGG→TAG) ‡	pldB →	lysophospholipase L2
RA	4,009,776	G→C	6.4%	A203P (GCG→CCG)	pldB →	lysophospholipase L2
RA	4,009,779	T→G	7.2%	L204V (TTG→GTG)	pldB →	lysophospholipase L2
RA	4,041,216	T→C	6.3%	Q73R (CAG→CGG) ‡	mobB ←	molybdopterin‑guanine dinucleotide biosynthesis protein B
RA	4,041,217	G→A	6.2%	Q73* (CAG→TAG) ‡	mobB ←	molybdopterin‑guanine dinucleotide biosynthesis protein B
RA	4,041,220	T→C	6.3%	S72G (AGC→GGC)	mobB ←	molybdopterin‑guanine dinucleotide biosynthesis protein B
RA	4,041,221	G→A	6.3%	A71A (GCC→GCT)	mobB ←	molybdopterin‑guanine dinucleotide biosynthesis protein B
RA	4,050,224	A→G	5.8%	L181S (TTG→TCG) ‡	yihA ←	cell division GTP‑binding protein
RA	4,050,225	A→T	6.6%	L181M (TTG→ATG) ‡	yihA ←	cell division GTP‑binding protein
RA	4,050,226	C→T	5.9%	S180S (TCG→TCA)	yihA ←	cell division GTP‑binding protein
RA	4,080,616	C→A	5.1%	G205C (GGC→TGC)	fdhE ←	formate dehydrogenase formation protein
RA	4,080,621	T→G	6.3%	Q203P (CAA→CCA)	fdhE ←	formate dehydrogenase formation protein
RA	4,092,780	C→A	5.8%	G15V (GGC→GTC)	frvA ←	putative enzyme IIA component of PTS
RA	4,092,795	T→G	9.2%	D10A (GAC→GCC)	frvA ←	putative enzyme IIA component of PTS
RA	4,103,526	A→G	5.5%	intergenic (+30/+76)	yiiM → / ← cpxA	6‑N‑hydroxylaminopurine resistance protein/sensory histidine kinase in two‑component regulatory system with CpxR
RA	4,103,527	T→A	5.5%	intergenic (+31/+75)	yiiM → / ← cpxA	6‑N‑hydroxylaminopurine resistance protein/sensory histidine kinase in two‑component regulatory system with CpxR
RA	4,103,528	C→T	5.4%	intergenic (+32/+74)	yiiM → / ← cpxA	6‑N‑hydroxylaminopurine resistance protein/sensory histidine kinase in two‑component regulatory system with CpxR
RA	4,127,251	C→T	7.3%	intergenic (+26/+35)	rpmE → / ← yiiX	50S ribosomal subunit protein L31/putative lipid binding hydrolase, DUF830 family protein
RA	4,127,252	A→G	7.1%	intergenic (+27/+34)	rpmE → / ← yiiX	50S ribosomal subunit protein L31/putative lipid binding hydrolase, DUF830 family protein
RA	4,177,171	T→A	5.4%	intergenic (+43/‑187)	tufB → / → secE	translation elongation factor EF‑Tu 2/preprotein translocase membrane subunit
RA	4,177,172	T→A	5.1%	intergenic (+44/‑186)	tufB → / → secE	translation elongation factor EF‑Tu 2/preprotein translocase membrane subunit
RA	4,198,437	G→A	5.2%	R241H (CGC→CAC)	hemE →	uroporphyrinogen decarboxylase
RA	4,274,680	G→T	7.3%	intergenic (+19/+80)	ssb → / ← yjcB	single‑stranded DNA‑binding protein/putative inner membrane protein
RA	4,274,681	G→A	6.7%	intergenic (+20/+79)	ssb → / ← yjcB	single‑stranded DNA‑binding protein/putative inner membrane protein
RA	4,274,682	T→A	6.7%	intergenic (+21/+78)	ssb → / ← yjcB	single‑stranded DNA‑binding protein/putative inner membrane protein
RA	4,274,683	T→C	6.9%	intergenic (+22/+77)	ssb → / ← yjcB	single‑stranded DNA‑binding protein/putative inner membrane protein
RA	4,274,684	A→C	6.6%	intergenic (+23/+76)	ssb → / ← yjcB	single‑stranded DNA‑binding protein/putative inner membrane protein
RA	4,281,680	T→A	5.1%	intergenic (+51/+103)	yjcE → / ← yjcF	putative cation/proton antiporter/pentapeptide repeats protein
RA	4,296,060	C→T	38.1%	intergenic (+266/+376)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,296,380:1	+CG	100%	intergenic (+586/+56)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,336,974	A→T	5.8%	S20T (TCG→ACG)	adiC ←	arginine:agmatine antiporter
RA	4,336,979	A→C	6.4%	M18R (ATG→AGG)	adiC ←	arginine:agmatine antiporter
RA	4,336,981	C→G	5.9%	L17L (CTG→CTC) ‡	adiC ←	arginine:agmatine antiporter
RA	4,336,983	G→T	5.9%	L17M (CTG→ATG) ‡	adiC ←	arginine:agmatine antiporter
RA	4,336,988	A→T	5.9%	V15D (GTC→GAC)	adiC ←	arginine:agmatine antiporter
RA	4,356,445	A→T	6.7%	intergenic (‑34/+25)	dtpC ← / ← cadA	dipeptide and tripeptide permease/lysine decarboxylase, acid‑inducible
RA	4,356,446	A→T	6.3%	intergenic (‑35/+24)	dtpC ← / ← cadA	dipeptide and tripeptide permease/lysine decarboxylase, acid‑inducible
RA	4,365,134	C→A	5.1%	A75S (GCA→TCA)	cutA ←	divalent‑cation tolerance protein, copper sensitivity
RA	4,366,854	T→G	5.1%	intergenic (‑81/+37)	dcuA ← / ← aspA	C4‑dicarboxylate antiporter/aspartate ammonia‑lyase
RA	4,366,855	C→A	5.1%	intergenic (‑82/+36)	dcuA ← / ← aspA	C4‑dicarboxylate antiporter/aspartate ammonia‑lyase
RA	4,376,280	G→A	6.6%	intergenic (+15/‑37)	efp → / → ecnA	polyproline‑specific translation elongation factor EF‑P/entericidin A membrane lipoprotein, antidote entericidin B
RA	4,376,291	T→C	6.6%	intergenic (+26/‑26)	efp → / → ecnA	polyproline‑specific translation elongation factor EF‑P/entericidin A membrane lipoprotein, antidote entericidin B
RA	4,400,330	C→G	5.5%	L15V (CTG→GTG)	hfq →	global sRNA chaperone; HF‑I, host factor for RNA phage Q beta replication
RA	4,407,867	A→T	5.4%	K405M (AAG→ATG)	rnr →	exoribonuclease R, RNase R
RA	4,407,871	T→A	5.6%	H406Q (CAT→CAA)	rnr →	exoribonuclease R, RNase R
RA	4,407,875	G→T	5.3%	E408* (GAA→TAA) ‡	rnr →	exoribonuclease R, RNase R
RA	4,407,876	A→T	5.4%	E408V (GAA→GTA) ‡	rnr →	exoribonuclease R, RNase R
RA	4,407,877	A→C	5.5%	E408D (GAA→GAC) ‡	rnr →	exoribonuclease R, RNase R
RA	4,407,881	T→A	5.3%	L410M (TTG→ATG)	rnr →	exoribonuclease R, RNase R
RA	4,407,885	A→T	6.5%	H411L (CAT→CTT)	rnr →	exoribonuclease R, RNase R
RA	4,409,402	Δ1 bp	6.9%	coding (128/732 nt)	rlmB →	23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
RA	4,409,407	T→A	7.2%	S45T (TCT→ACT)	rlmB →	23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
RA	4,409,410:1	+A	6.2%	coding (136/732 nt)	rlmB →	23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
RA	4,454,800	C→G	7.0%	L270L (CTG→CTC)	fbp ←	fructose‑1,6‑bisphosphatase I
RA	4,457,246	T→A	5.8%	intergenic (+88/+68)	mpl → / ← yjgA	UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase/ribosome‑associated UPF0307 family protein
RA	4,472,434	G→A	6.8%	R34* (CGA→TGA)	pyrL ←	pyrBI operon leader peptide
RA	4,472,437	T→C	7.0%	N33D (AAT→GAT)	pyrL ←	pyrBI operon leader peptide
RA	4,473,927	C→A	100%	A43S (GCC→TCC)	bdcA ←	c‑di‑GMP‑binding biofilm dispersal mediator protein
RA	4,502,106	A→C	5.4%	A442A (GCT→GCG) ‡	insG ←	IS4 transposase
RA	4,502,107	G→T	5.2%	A442D (GCT→GAT) ‡	insG ←	IS4 transposase
RA	4,515,328	T→G	5.2%	E450D (GAA→GAC) ‡	fecA ←	TonB‑dependent outer membrane ferric citrate transporter and signal transducer; ferric citrate extracelluar receptor; FecR‑interacting protein
RA	4,515,329	T→A	5.2%	E450V (GAA→GTA) ‡	fecA ←	TonB‑dependent outer membrane ferric citrate transporter and signal transducer; ferric citrate extracelluar receptor; FecR‑interacting protein
RA	4,515,330	C→A	5.0%	E450* (GAA→TAA) ‡	fecA ←	TonB‑dependent outer membrane ferric citrate transporter and signal transducer; ferric citrate extracelluar receptor; FecR‑interacting protein
RA	4,629,646	G→A	7.8%	R293C (CGC→TGC)	ettA ←	energy‑dependent translational throttle A
RA	4,629,649	C→T	7.7%	A292T (GCG→ACG)	ettA ←	energy‑dependent translational throttle A
RA	4,629,651	A→T	7.6%	L291Q (CTG→CAG)	ettA ←	energy‑dependent translational throttle A
RA	4,629,653	A→G	7.5%	R290R (CGT→CGC)	ettA ←	energy‑dependent translational throttle A
RA	4,629,656	T→C	7.7%	A289A (GCA→GCG)	ettA ←	energy‑dependent translational throttle A

Unassigned missing coverage evidence
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	448618	450686	2069	36 [35]	[30] 40	[cyoC]–[cyoA]	[cyoC],cyoB,[cyoA]
*	*	÷	NC_000913	1166063	1167406	1344	37 [34]	[35] 37	ndh	ndh
*	*	÷	NC_000913	3423722–3424571	3424571	1–850	36 [35]	[35] 37	[rrfD]–[rrlD]	[rrfD],[rrlD]

Unassigned new junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 16653	NA (NA)	7 (0.080)	5/260	NT	NA	noncoding (1267/1345 nt)	IS186	repeat region
	?	NC_000913	= 16691	NA (NA)					noncoding (1305/1345 nt)	IS186	repeat region
*	?	NC_000913	= 32224	59 (0.650)	4 (0.050)	4/262	NT	6.6%	coding (1408/3222 nt)	carB	carbamoyl‑phosphate synthase large subunit
	?	NC_000913	= 32285	57 (0.660)					coding (1469/3222 nt)	carB	carbamoyl‑phosphate synthase large subunit
*	?	NC_000913	53293 =	57 (0.630)	3 (0.040)	3/260	NT	5.3%	coding (124/990 nt)	pdxA	4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent
	?	NC_000913	53333 =	54 (0.630)					coding (84/990 nt)	pdxA	4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent
*	?	NC_000913	71653 =	82 (0.910)	5 (0.060)	5/256	NT	6.6%	coding (303/765 nt)	yabI	DedA family inner membrane protein
	?	NC_000913	71685 =	66 (0.780)					coding (335/765 nt)	yabI	DedA family inner membrane protein
*	?	NC_000913	179793 =	84 (0.930)	5 (0.060)	5/262	NT	6.1%	coding (557/1518 nt)	dgt	deoxyguanosine triphosphate triphosphohydrolase
	?	NC_000913	179819 =	73 (0.850)					coding (583/1518 nt)	dgt	deoxyguanosine triphosphate triphosphohydrolase
*	?	NC_000913	187551 =	70 (0.780)	5 (0.060)	5/262	NT	7.2%	coding (1100/2673 nt)	glnD	uridylyltransferase
	?	NC_000913	187593 =	61 (0.710)					coding (1058/2673 nt)	glnD	uridylyltransferase
*	?	NC_000913	= 224374	NA (NA)	6 (0.070)	6/260	NT	NA	noncoding (604/1542 nt)	rrsH	16S ribosomal RNA of rrnH operon
	?	NC_000913	= 224403	NA (NA)					noncoding (633/1542 nt)	rrsH	16S ribosomal RNA of rrnH operon
*	?	NC_000913	225136 =	NA (NA)	5 (0.060)	4/268	NT	NA	noncoding (1366/1542 nt)	rrsH	16S ribosomal RNA of rrnH operon
	?	NC_000913	225187 =	NA (NA)					noncoding (1417/1542 nt)	rrsH	16S ribosomal RNA of rrnH operon
*	?	NC_000913	233778 =	94 (1.040)	5 (0.060)	5/258	NT	5.6%	coding (178/1359 nt)	mltD	putative membrane‑bound lytic murein transglycosylase D
	?	NC_000913	233836 =	80 (0.940)					coding (120/1359 nt)	mltD	putative membrane‑bound lytic murein transglycosylase D
*	?	NC_000913	246135 =	113 (1.250)	6 (0.070)	6/250	NT	6.0%	coding (105/279 nt)	yafQ	mRNA interferase toxin of toxin‑antitoxin pair YafQ/DinJ
	?	NC_000913	246180 =	86 (1.040)					coding (60/279 nt)	yafQ	mRNA interferase toxin of toxin‑antitoxin pair YafQ/DinJ
*	?	NC_000913	258469 =	NA (NA)	3 (0.040)	3/256	NT	6.7%	noncoding (207/768 nt)	IS1	repeat region
	?	NC_000913	= 1049890	45 (0.500)					noncoding (113/768 nt)	IS1	repeat region
*	?	NC_000913	274038 =	NA (NA)	4 (0.050)	4/262	NT	NA	noncoding (1112/1195 nt)	IS5	repeat region
	?	NC_000913	274083 =	NA (NA)					noncoding (1067/1195 nt)	IS5	repeat region
*	?	NC_000913	274347 =	NA (NA)	3 (0.040)	3/260	NT	NA	noncoding (803/1195 nt)	IS5	repeat region
	?	NC_000913	274410 =	NA (NA)					noncoding (740/1195 nt)	IS5	repeat region
*	?	NC_000913	274384 =	NA (NA)	4 (0.050)	4/268	NT	NA	noncoding (766/1195 nt)	IS5	repeat region
	?	NC_000913	274422 =	NA (NA)					noncoding (728/1195 nt)	IS5	repeat region
*	?	NC_000913	274578 =	NA (NA)	5 (0.060)	4/260	NT	NA	noncoding (572/1195 nt)	IS5	repeat region
	?	NC_000913	274663 =	NA (NA)					noncoding (487/1195 nt)	IS5	repeat region
*	?	NC_000913	274620 =	NA (NA)	11 (0.130)	6/256	NT	NA	noncoding (530/1195 nt)	IS5	repeat region
	?	NC_000913	274663 =	NA (NA)					noncoding (487/1195 nt)	IS5	repeat region
*	?	NC_000913	= 274624	NA (NA)	4 (0.050)	4/268	NT	NA	noncoding (526/1195 nt)	IS5	repeat region
	?	NC_000913	= 274693	NA (NA)					noncoding (457/1195 nt)	IS5	repeat region
*	?	NC_000913	= 274695	NA (NA)	6 (0.070)	3/266	NT	NA	noncoding (455/1195 nt)	IS5	repeat region
	?	NC_000913	= 274727	NA (NA)					noncoding (423/1195 nt)	IS5	repeat region
*	?	NC_000913	287759 =	53 (0.590)	5 (0.060)	5/260	NT	7.9%	coding (971/1611 nt)	yagH	CP4‑6 prophage; putative xylosidase/arabinosidase
	?	NC_000913	287824 =	66 (0.770)					coding (1036/1611 nt)	yagH	CP4‑6 prophage; putative xylosidase/arabinosidase
*	?	NC_000913	291195 =	NA (NA)	7 (0.080)	5/256	NT	31.9%	noncoding (207/768 nt)	IS1	repeat region
	?	NC_000913	291289 =	16 (0.180)					noncoding (113/768 nt)	IS1	repeat region
*	?	NC_000913	315781 =	NA (NA)	3 (0.030)	3/264	NT	NA	noncoding (553/1255 nt)	IS3	repeat region
	?	NC_000913	315875 =	NA (NA)					noncoding (647/1255 nt)	IS3	repeat region
*	?	NC_000913	= 343980	124 (1.370)	7 (0.080)	7/254	NT	5.4%	intergenic (+47/‑196)	yahK/yahL	broad specificity NADPH‑dependent aldehyde reductase, Zn‑containing/uncharacterized protein
	?	NC_000913	= 343998	132 (1.580)					intergenic (+65/‑178)	yahK/yahL	broad specificity NADPH‑dependent aldehyde reductase, Zn‑containing/uncharacterized protein
*	?	NC_000913	= 369027	63 (0.700)	3 (0.040)	3/258	NT	5.0%	coding (417/1665 nt)	mhpA	3‑(3‑hydroxyphenyl)propionate hydroxylase
	?	NC_000913	= 369092	54 (0.640)					coding (482/1665 nt)	mhpA	3‑(3‑hydroxyphenyl)propionate hydroxylase
*	?	NC_000913	= 381669	NA (NA)	6 (0.070)	5/260	NT	NA	noncoding (410/1331 nt)	IS2	repeat region
	?	NC_000913	= 381695	NA (NA)					noncoding (436/1331 nt)	IS2	repeat region
*	?	NC_000913	382282 =	NA (NA)	10 (0.120)	8/262	NT	NA	noncoding (1023/1331 nt)	IS2	repeat region
	?	NC_000913	382313 =	NA (NA)					noncoding (1054/1331 nt)	IS2	repeat region
*	?	NC_000913	= 382323	NA (NA)	8 (0.090)	3/264	NT	NA	noncoding (1064/1331 nt)	IS2	repeat region
	?	NC_000913	= 382348	NA (NA)					noncoding (1089/1331 nt)	IS2	repeat region
*	?	NC_000913	437769 =	76 (0.840)	4 (0.050)	3/260	NT	5.4%	coding (367/975 nt)	yajO	2‑carboxybenzaldehyde reductase
	?	NC_000913	437813 =	67 (0.780)					coding (323/975 nt)	yajO	2‑carboxybenzaldehyde reductase
*	?	NC_000913	450687 =	28 (0.310)	4 (0.050)	4/266	NT	8.2%	coding (924/948 nt)	cyoA	cytochrome o ubiquinol oxidase subunit II
	?	NC_000913	450751 =	62 (0.710)					coding (860/948 nt)	cyoA	cytochrome o ubiquinol oxidase subunit II
*	?	NC_000913	465407 =	69 (0.760)	4 (0.050)	4/264	NT	5.7%	coding (141/696 nt)	queC	7‑cyano‑7‑deazaguanine (preQ0) synthase; queuosine biosynthesis
	?	NC_000913	465460 =	66 (0.760)					coding (88/696 nt)	queC	7‑cyano‑7‑deazaguanine (preQ0) synthase; queuosine biosynthesis
*	?	NC_000913	609312 =	61 (0.680)	4 (0.050)	4/260	NT	7.1%	noncoding (1306/1345 nt)	IS186	repeat region
	?	NC_000913	2515540 =	47 (0.550)					noncoding (1268/1345 nt)	IS186	repeat region
*	?	NC_000913	= 627928	70 (0.780)	4 (0.050)	3/264	NT	5.6%	coding (235/858 nt)	entB	isochorismatase
	?	NC_000913	= 627955	67 (0.770)					coding (262/858 nt)	entB	isochorismatase
*	?	NC_000913	692174 =	83 (0.920)	5 (0.060)	4/268	NT	5.4%	coding (168/468 nt)	ybeY	ssRNA‑specific endoribonuclease; 16S rRNA 3' end maturation and quality control co‑endoribonuclease working with RNase R; rRNA transcription antitermination factor
	?	NC_000913	692276 =	95 (1.080)					coding (66/468 nt)	ybeY	ssRNA‑specific endoribonuclease; 16S rRNA 3' end maturation and quality control co‑endoribonuclease working with RNase R; rRNA transcription antitermination factor
*	?	NC_000913	781577 =	70 (0.780)	3 (0.030) +GAAGTG	3/262	NT	5.6%	noncoding (1/76 nt)	lysQ	tRNA‑Lys
	?	NC_000913	2521171 =	36 (0.400)					intergenic (+45/‑2)	valX/valY	tRNA‑Val/tRNA‑Val
*	?	NC_000913	786739 =	NA (NA)	5 (0.060)	4/260	NT	NA	noncoding (5/35 nt)	REP70 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP70 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913	786770 =	NA (NA)					intergenic (+85/+73)	aroG/gpmA	3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, phenylalanine repressible/phosphoglyceromutase 1
*	?	NC_000913	812959 =	92 (1.020)	5 (0.060)	4/248	NT	5.4%	intergenic (+12/‑567)	bioD/uvrB	dethiobiotin synthetase/exision nuclease of nucleotide excision repair, DNA damage recognition component
	?	NC_000913	813011 =	91 (1.110)					intergenic (+64/‑515)	bioD/uvrB	dethiobiotin synthetase/exision nuclease of nucleotide excision repair, DNA damage recognition component
*	?	NC_000913	= 847031	52 (0.580)	5 (0.060)	5/258	NT	8.2%	coding (89/660 nt)	glnP	glutamine transporter subunit
	?	NC_000913	= 847085	63 (0.740)					coding (35/660 nt)	glnP	glutamine transporter subunit
*	?	NC_000913	862033 =	79 (0.880)	4 (0.050)	4/258	NT	5.4%	coding (574/2433 nt)	ybiW	putative pyruvate formate lyase
	?	NC_000913	862066 =	67 (0.790)					coding (541/2433 nt)	ybiW	putative pyruvate formate lyase
*	?	NC_000913	= 890705	100 (1.110)	6 (0.070)	4/266	NT	5.8%	coding (49/258 nt)	grxA	glutaredoxin 1, redox coenzyme for ribonucleotide reductase (RNR1a)
	?	NC_000913	= 890720	99 (1.130)					coding (34/258 nt)	grxA	glutaredoxin 1, redox coenzyme for ribonucleotide reductase (RNR1a)
*	?	NC_000913	909747 =	72 (0.800)	4 (0.050)	4/262	NT	5.6%	coding (1303/1719 nt)	poxB	pyruvate dehydrogenase, thiamine triphosphate‑binding, FAD‑binding
	?	NC_000913	909821 =	66 (0.770)					coding (1229/1719 nt)	poxB	pyruvate dehydrogenase, thiamine triphosphate‑binding, FAD‑binding
*	?	NC_000913	= 912484	76 (0.840)	5 (0.060)	5/260	NT	6.3%	coding (1331/1653 nt)	hcp	hybrid‑cluster [4Fe‑2S‑2O] subunit of anaerobic terminal reductases
	?	NC_000913	= 912503	76 (0.890)					coding (1312/1653 nt)	hcp	hybrid‑cluster [4Fe‑2S‑2O] subunit of anaerobic terminal reductases
*	?	NC_000913	= 919352	88 (0.980)	7 (0.080)	7/262	NT	7.9%	coding (118/1116 nt)	macA	macrolide transporter membrane fusion protein (MFP) component
	?	NC_000913	= 919436	78 (0.900)					coding (202/1116 nt)	macA	macrolide transporter membrane fusion protein (MFP) component
*	?	NC_000913	939013 =	63 (0.700)	5 (0.060)	5/266	NT	7.3%	coding (1020/1344 nt)	rarA	recombination intermediate processing DNA‑dependent ATPase
	?	NC_000913	939068 =	66 (0.750)					coding (1075/1344 nt)	rarA	recombination intermediate processing DNA‑dependent ATPase
*	?	NC_000913	992346 =	89 (0.990)	5 (0.060)	5/258	NT	5.5%	coding (1725/2613 nt)	pepN	aminopeptidase N
	?	NC_000913	992438 =	87 (1.020)					coding (1817/2613 nt)	pepN	aminopeptidase N
*	?	NC_000913	= 1008473	70 (0.780)	4 (0.050)	4/262	NT	5.6%	coding (630/2109 nt)	rlmL	23S rRNA m(2)G2445 and m(7)G2069 methyltransferases, SAM‑dependent
	?	NC_000913	= 1008530	68 (0.790)					coding (687/2109 nt)	rlmL	23S rRNA m(2)G2445 and m(7)G2069 methyltransferases, SAM‑dependent
*	?	NC_000913	= 1032296	76 (0.840)	4 (0.050)	4/260	NT	5.1%	coding (158/1119 nt)	hyaA	hydrogenase 1, small subunit
	?	NC_000913	= 1032317	77 (0.900)					coding (179/1119 nt)	hyaA	hydrogenase 1, small subunit
*	?	NC_000913	= 1039632	75 (0.830)	4 (0.050)	4/260	NT	5.3%	coding (337/1137 nt)	cbdB	cytochrome bd‑II oxidase, subunit II
	?	NC_000913	= 1039666	72 (0.840)					coding (371/1137 nt)	cbdB	cytochrome bd‑II oxidase, subunit II
*	?	NC_000913	1042543 =	76 (0.840)	4 (0.050)	4/258	NT	5.3%	coding (1668/2181 nt)	etk	tyrosine‑protein kinase, role in O‑antigen capsule formation
	?	NC_000913	1042607 =	70 (0.820)					coding (1604/2181 nt)	etk	tyrosine‑protein kinase, role in O‑antigen capsule formation
*	?	NC_000913	1124056 =	55 (0.610)	3 (0.040)	3/258	NT	5.8%	intergenic (‑2/+62)	grxB/mdtH	glutaredoxin 2 (Grx2)/multidrug resistance efflux transporter conferring overexpression resistance to norfloxacin and enoxacin
	?	NC_000913	1124103 =	45 (0.530)					intergenic (‑49/+15)	grxB/mdtH	glutaredoxin 2 (Grx2)/multidrug resistance efflux transporter conferring overexpression resistance to norfloxacin and enoxacin
*	?	NC_000913	= 1186372	58 (0.640)	4 (0.050)	3/264	NT	6.1%	coding (529/1227 nt)	pepT	peptidase T
	?	NC_000913	= 1186406	67 (0.770)					coding (563/1227 nt)	pepT	peptidase T
*	?	NC_000913	= 1203950	90 (1.000)	5 (0.060)	5/256	NT	5.5%	coding (129/339 nt)	ymfM	e14 prophage; uncharacterized protein
	?	NC_000913	= 1203962	87 (1.030)					coding (141/339 nt)	ymfM	e14 prophage; uncharacterized protein
*	?	NC_000913	1207790 =	40 (0.440)	56 (0.700)	45/242	NT	62.8%	coding (290/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	1209619 =	31 (0.390)					pseudogene (1/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	= 1207805	38 (0.420)	34 (0.430)	32/242	NT	51.3%	coding (305/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	= 1209602	31 (0.390)					pseudogene (18/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	= 1221620	54 (0.600)	4 (0.050)	4/264	NT	7.5%	pseudogene (2020/2574 nt)	ycgH	pseudogene; putative ATP‑binding component of a transport system
	?	NC_000913	= 1221660	47 (0.540)					pseudogene (2060/2574 nt)	ycgH	pseudogene; putative ATP‑binding component of a transport system
*	?	NC_000913	1243718 =	73 (0.810)	7 (0.080)	5/260	NT	9.4%	coding (539/612 nt)	emtA	lytic murein endotransglycosylase E
	?	NC_000913	1243755 =	66 (0.770)					coding (576/612 nt)	emtA	lytic murein endotransglycosylase E
*	?	NC_000913	1247020 =	74 (0.820)	10 (0.120)	8/256	NT	13.3%	coding (357/1698 nt)	treA	periplasmic trehalase
	?	NC_000913	1247061 =	61 (0.720)					coding (316/1698 nt)	treA	periplasmic trehalase
*	?	NC_000913	1247840 =	77 (0.850)	5 (0.060)	5/260	NT	6.5%	coding (1275/1419 nt)	dhaM	putative dihydroxyacetone‑specific PTS enzymes: HPr, EI components
	?	NC_000913	1247877 =	70 (0.820)					coding (1238/1419 nt)	dhaM	putative dihydroxyacetone‑specific PTS enzymes: HPr, EI components
*	?	NC_000913	1261213 =	76 (0.840)	6 (0.070)	5/256	NT	8.8%	coding (663/948 nt)	prs	phosphoribosylpyrophosphate synthase
	?	NC_000913	1261306 =	53 (0.630)					coding (570/948 nt)	prs	phosphoribosylpyrophosphate synthase
*	?	NC_000913	1359194 =	69 (0.760)	5 (0.060)	5/268	NT	6.5%	intergenic (‑7/+296)	puuP/puuA	putrescine importer/glutamate‑‑putrescine ligase
	?	NC_000913	1359263 =	76 (0.860)					intergenic (‑76/+227)	puuP/puuA	putrescine importer/glutamate‑‑putrescine ligase
*	?	NC_000913	1396531 =	NA (NA)	4 (0.050)	3/262	NT	NA	noncoding (488/1195 nt)	IS5	repeat region
	?	NC_000913	= 1428264	NA (NA)					noncoding (531/1196 nt)	IS5	repeat region
*	?	NC_000913	1420484 =	100 (1.110)	5 (0.060)	3/258	NT	5.2%	coding (120/297 nt)	ydaS	Rac prophage; putative DNA‑binding transcriptional regulator
	?	NC_000913	1420517 =	88 (1.040)					coding (153/297 nt)	ydaS	Rac prophage; putative DNA‑binding transcriptional regulator
*	?	NC_000913	= 1461942	53 (0.590)	5 (0.060)	5/256	NT	8.7%	coding (1050/1206 nt)	paaJ	3‑oxoadipyl‑CoA/3‑oxo‑5,6‑dehydrosuberyl‑CoA thiolase
	?	NC_000913	= 1461962	56 (0.660)					coding (1070/1206 nt)	paaJ	3‑oxoadipyl‑CoA/3‑oxo‑5,6‑dehydrosuberyl‑CoA thiolase
*	?	NC_000913	1465092 =	170 (1.880)	9 (0.110)	8/252	NT	5.6%	intergenic (+31/+73)	paaY/ynbG	thioesterase required for phenylacetic acid degradation; trimeric; phenylacetate regulatory and detoxification protein; hexapeptide repeat protein/uncharacterized protein
	?	NC_000913	1465125 =	147 (1.770)					intergenic (+64/+40)	paaY/ynbG	thioesterase required for phenylacetic acid degradation; trimeric; phenylacetate regulatory and detoxification protein; hexapeptide repeat protein/uncharacterized protein
*	?	NC_000913	= 1494256	88 (0.980)	5 (0.060)	4/262	NT	5.6%	coding (816/924 nt)	ydcI	putative DNA‑binding transcriptional regulator
	?	NC_000913	= 1494313	85 (0.990)					coding (759/924 nt)	ydcI	putative DNA‑binding transcriptional regulator
*	?	NC_000913	= 1531574	127 (1.410)	8 (0.100)	6/254	NT	6.1%	pseudogene (250/315 nt)	yncI	pseudogene
	?	NC_000913	= 1531656	130 (1.550)					intergenic (+17/‑160)	yncI/ydcC	pseudogene/H repeat‑associated putative transposase
*	?	NC_000913	= 1584174	144 (1.600)	8 (0.100)	7/250	NT	5.5%	intergenic (‑215/+33)	safA/ydeP	two‑component system connector membrane protein, EvgSA to PhoQP/putative oxidoreductase
	?	NC_000913	= 1584181	143 (1.740)					intergenic (‑222/+26)	safA/ydeP	two‑component system connector membrane protein, EvgSA to PhoQP/putative oxidoreductase
*	?	NC_000913	= 1606388	64 (0.710)	5 (0.060)	4/264	NT	7.4%	coding (289/876 nt)	lsrF	putative autoinducer‑2 (AI‑2) aldolase
	?	NC_000913	= 1606431	64 (0.740)					coding (332/876 nt)	lsrF	putative autoinducer‑2 (AI‑2) aldolase
*	?	NC_000913	1606648 =	85 (0.940)	5 (0.060)	4/262	NT	5.9%	coding (549/876 nt)	lsrF	putative autoinducer‑2 (AI‑2) aldolase
	?	NC_000913	1606687 =	78 (0.900)					coding (588/876 nt)	lsrF	putative autoinducer‑2 (AI‑2) aldolase
*	?	NC_000913	1611456 =	60 (0.670)	3 (0.040)	3/260	NT	5.9%	coding (399/948 nt)	yneF	putative membrane‑bound diguanylate cyclase
	?	NC_000913	1611502 =	39 (0.460)					coding (353/948 nt)	yneF	putative membrane‑bound diguanylate cyclase
*	?	NC_000913	1679300 =	72 (0.800)	8 (0.090)	7/256	NT	10.7%	coding (874/945 nt)	ydgH	DUF1471 family periplasmic protein
	?	NC_000913	1679340 =	66 (0.780)					coding (914/945 nt)	ydgH	DUF1471 family periplasmic protein
*	?	NC_000913	= 1746837	79 (0.880)	5 (0.060)	5/256	NT	6.1%	coding (138/306 nt)	ydhR	putative monooxygenase
	?	NC_000913	= 1746861	81 (0.960)					coding (162/306 nt)	ydhR	putative monooxygenase
*	?	NC_000913	= 1825935	107 (1.190)	11 (0.130)	10/252	NT	9.6%	intergenic (‑310/+20)	spy/astE	periplasmic ATP‑independent protein refolding chaperone, stress‑induced/succinylglutamate desuccinylase
	?	NC_000913	= 1825939	109 (1.310)					intergenic (‑314/+16)	spy/astE	periplasmic ATP‑independent protein refolding chaperone, stress‑induced/succinylglutamate desuccinylase
*	?	NC_000913	= 1963682	56 (0.620)	3 (0.030)	3/262	NT	5.4%	coding (1369/2079 nt)	flhA	putative flagellar export pore protein
	?	NC_000913	= 1963710	52 (0.600)					coding (1341/2079 nt)	flhA	putative flagellar export pore protein
*	?	NC_000913	1978503 =	NA (NA)	46 (0.510)	35/274	NT	34.6%	noncoding (768/768 nt)	IS1	repeat region
	?	NC_000913	2380552 =	87 (0.960)					coding (92/1296 nt)	menF	isochorismate synthase 2
*	?	NC_000913	= 1979270	NA (NA)	44 (0.490)	35/274	NT	33.1%	noncoding (1/768 nt)	IS1	repeat region
	?	NC_000913	= 2462393	89 (0.990)					coding (1088/1341 nt)	fadL	long‑chain fatty acid outer membrane transporter
*	?	NC_000913	= 1980657	82 (0.910)	5 (0.060)	4/260	NT	5.9%	coding (956/1425 nt)	otsA	trehalose‑6‑phosphate synthase
	?	NC_000913	= 1980678	81 (0.950)					coding (935/1425 nt)	otsA	trehalose‑6‑phosphate synthase
*	?	NC_000913	2033150 =	72 (0.800)	6 (0.070)	4/260	NT	8.3%	coding (335/366 nt)	yedR	inner membrane protein
	?	NC_000913	2033192 =	64 (0.750)					coding (293/366 nt)	yedR	inner membrane protein
*	?	NC_000913	2057582 =	158 (1.750)	9 (0.110)	9/248	NT	6.3%	intergenic (+8/+445)	yeeN/asnW	UPF0082 family protein/tRNA‑Asn
	?	NC_000913	2057617 =	125 (1.530)					intergenic (+43/+410)	yeeN/asnW	UPF0082 family protein/tRNA‑Asn
*	?	NC_000913	2060677 =	64 (0.710)	3 (0.040)	3/256	NT	5.1%	coding (238/951 nt)	cbl	ssuEADCB/tauABCD operon transcriptional activator
	?	NC_000913	2060722 =	52 (0.620)					coding (193/951 nt)	cbl	ssuEADCB/tauABCD operon transcriptional activator
*	?	NC_000913	= 2060685	64 (0.710)	3 (0.040)	3/256	NT	5.1%	coding (230/951 nt)	cbl	ssuEADCB/tauABCD operon transcriptional activator
	?	NC_000913	= 2060712	52 (0.620)					coding (203/951 nt)	cbl	ssuEADCB/tauABCD operon transcriptional activator
*	?	NC_000913	= 2091756	54 (0.600)	3 (0.030)	3/264	NT	5.2%	coding (660/1305 nt)	hisD	bifunctional histidinal dehydrogenase/ histidinol dehydrogenase
	?	NC_000913	= 2091823	57 (0.660)					coding (727/1305 nt)	hisD	bifunctional histidinal dehydrogenase/ histidinol dehydrogenase
*	?	NC_000913	2097852 =	100 (1.110)	7 (0.080)	7/262	NT	7.0%	coding (450/981 nt)	wzzB	regulator of length of O‑antigen component of lipopolysaccharide chains
	?	NC_000913	2097893 =	90 (1.040)					coding (409/981 nt)	wzzB	regulator of length of O‑antigen component of lipopolysaccharide chains
*	?	NC_000913	2120316 =	75 (0.830)	4 (0.050)	3/260	NT	5.5%	coding (1239/1395 nt)	wcaJ	colanic biosynthesis UDP‑glucose lipid carrier transferase
	?	NC_000913	2120358 =	65 (0.760)					coding (1197/1395 nt)	wcaJ	colanic biosynthesis UDP‑glucose lipid carrier transferase
*	?	NC_000913	= 2124345	73 (0.810)	4 (0.050)	3/262	NT	5.0%	coding (176/1437 nt)	cpsB	mannose‑1‑phosphate guanyltransferase
	?	NC_000913	= 2124393	82 (0.950)					coding (128/1437 nt)	cpsB	mannose‑1‑phosphate guanyltransferase
*	?	NC_000913	2141906 =	71 (0.790)	4 (0.050)	4/266	NT	5.5%	coding (310/582 nt)	dcd	deoxycytidine triphosphate deaminase; dCTP deaminase
	?	NC_000913	2141964 =	69 (0.790)					coding (252/582 nt)	dcd	deoxycytidine triphosphate deaminase; dCTP deaminase
*	?	NC_000913	= 2146499	76 (0.840)	4 (0.050)	4/256	NT	5.5%	coding (3234/3318 nt)	yegE	putative diguanylate cyclase
	?	NC_000913	= 2146526	67 (0.790)					coding (3261/3318 nt)	yegE	putative diguanylate cyclase
*	?	NC_000913	= 2168825	91 (1.010)	6 (0.070)	5/262	NT	6.5%	coding (114/900 nt)	yegS	phosphatidylglycerol kinase, metal‑dependent
	?	NC_000913	= 2168847	85 (0.990)					coding (136/900 nt)	yegS	phosphatidylglycerol kinase, metal‑dependent
*	?	NC_000913	2177453 =	NA (NA)	5 (0.060)	5/264	NT	5.5%	noncoding (46/77 nt)	REP151 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP151 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913	2177479 =	86 (0.990)					noncoding (72/77 nt)	REP151 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP151 (repetitive extragenic palindromic) element; contains 2 REP sequences
*	?	NC_000913	2179804 =	97 (1.080)	6 (0.070)	5/262	NT	6.3%	coding (984/1278 nt)	yegT	nucleoside transporter, low affinity
	?	NC_000913	2179840 =	87 (1.010)					coding (1020/1278 nt)	yegT	nucleoside transporter, low affinity
*	?	NC_000913	2258692 =	81 (0.900)	6 (0.070)	5/266	NT	7.4%	coding (605/942 nt)	psuK	pseudouridine kinase
	?	NC_000913	2258736 =	71 (0.810)					coding (561/942 nt)	psuK	pseudouridine kinase
*	?	NC_000913	= 2268010	73 (0.810)	4 (0.050)	4/264	NT	5.3%	coding (182/987 nt)	yeiR	Zn‑stimulated GTPase involved in zinc homeostasis; mutants are cadmium and EDTA sensitive; Zn(2+) binding protein
	?	NC_000913	= 2268105	74 (0.850)					coding (277/987 nt)	yeiR	Zn‑stimulated GTPase involved in zinc homeostasis; mutants are cadmium and EDTA sensitive; Zn(2+) binding protein
*	?	NC_000913	2279469 =	66 (0.730)	3 (0.040)	3/252	NT	5.1%	coding (292/1191 nt)	bcr	bicyclomycin/cysteine/sulfonamide efflux transporter
	?	NC_000913	2279514 =	51 (0.610)					coding (247/1191 nt)	bcr	bicyclomycin/cysteine/sulfonamide efflux transporter
*	?	NC_000913	= 2335545	73 (0.810)	5 (0.060)	3/262	NT	6.5%	coding (1100/1689 nt)	yfaA	DUF2138 family protein, putative host defense protein
	?	NC_000913	= 2335576	73 (0.850)					coding (1069/1689 nt)	yfaA	DUF2138 family protein, putative host defense protein
*	?	NC_000913	= 2376055	57 (0.630)	5 (0.060)	4/262	NT	7.9%	coding (765/858 nt)	menB	dihydroxynaphthoic acid synthetase
	?	NC_000913	= 2376144	62 (0.720)					coding (676/858 nt)	menB	dihydroxynaphthoic acid synthetase
*	?	NC_000913	= 2456279	143 (1.590)	8 (0.090)	7/258	NT	5.6%	intergenic (‑633/+48)	yfcV/sixA	putative fimbrial‑like adhesin protein/phosphohistidine phosphatase
	?	NC_000913	= 2456322	133 (1.570)					intergenic (‑676/+5)	yfcV/sixA	putative fimbrial‑like adhesin protein/phosphohistidine phosphatase
*	?	NC_000913	= 2506037	59 (0.650)	4 (0.050)	4/260	NT	6.2%	coding (596/1086 nt)	ypdF	Xaa‑Pro aminopeptidase
	?	NC_000913	= 2506075	66 (0.770)					coding (558/1086 nt)	ypdF	Xaa‑Pro aminopeptidase
*	?	NC_000913	2521166 =	38 (0.420)	4 (0.050)	4/256	NT	7.0%	intergenic (+40/‑7)	valX/valY	tRNA‑Val/tRNA‑Val
	?	NC_000913	2521255 =	70 (0.830)					noncoding (3/76 nt)	lysV	tRNA‑Lys
*	?	NC_000913	= 2539674	NA (NA)	6 (0.070)	5/260	NT	NA	intergenic (‑91/+43)	cysM/cysA	cysteine synthase B (O‑acetylserine sulfhydrolase B)/sulfate/thiosulfate transporter subunit
	?	NC_000913	= 2539688	NA (NA)					intergenic (‑105/+29)	cysM/cysA	cysteine synthase B (O‑acetylserine sulfhydrolase B)/sulfate/thiosulfate transporter subunit
*	?	NC_000913	= 2559352	67 (0.740)	4 (0.050)	3/264	NT	5.3%	coding (495/1209 nt)	intZ	CPZ‑55 prophage; putative phage integrase
	?	NC_000913	= 2559381	78 (0.900)					coding (524/1209 nt)	intZ	CPZ‑55 prophage; putative phage integrase
*	?	NC_000913	2603700 =	81 (0.900)	5 (0.060)	4/264	NT	5.7%	coding (1883/2019 nt)	hyfB	hydrogenase 4, membrane subunit
	?	NC_000913	2603730 =	86 (0.990)					coding (1913/2019 nt)	hyfB	hydrogenase 4, membrane subunit
*	?	NC_000913	2606125 =	85 (0.940)	6 (0.070)	5/260	NT	6.9%	coding (1315/1440 nt)	hyfD	hydrogenase 4, membrane subunit
	?	NC_000913	2606172 =	81 (0.950)					coding (1362/1440 nt)	hyfD	hydrogenase 4, membrane subunit
*	?	NC_000913	2729443 =	44 (0.490)	8 (0.100)	7/254	NT	16.2%	noncoding (2/76 nt)	gltW	tRNA‑Glu
	?	NC_000913	2729485 =	42 (0.500)					intergenic (‑41/+131)	gltW/rrsG	tRNA‑Glu/16S ribosomal RNA of rrnG operon
*	?	NC_000913	2826284 =	63 (0.700)	7 (0.080)	4/260	NT	10.5%	coding (453/564 nt)	srlA	glucitol/sorbitol‑specific enzyme IIC component of PTS
	?	NC_000913	2826315 =	59 (0.690)					coding (484/564 nt)	srlA	glucitol/sorbitol‑specific enzyme IIC component of PTS
*	?	NC_000913	2844517 =	74 (0.820)	4 (0.050)	4/262	NT	5.3%	coding (236/543 nt)	hycF	formate hydrogenlyase complex iron‑sulfur protein
	?	NC_000913	2844569 =	73 (0.850)					coding (184/543 nt)	hycF	formate hydrogenlyase complex iron‑sulfur protein
*	?	NC_000913	2900520 =	146 (1.620)	7 (0.080)	6/252	NT	5.2%	intergenic (‑247/‑72)	ygcW/yqcE	putative SDR family oxidoreductase/putative MFS transporter, inner membrane protein
	?	NC_000913	2900560 =	122 (1.470)					intergenic (‑287/‑32)	ygcW/yqcE	putative SDR family oxidoreductase/putative MFS transporter, inner membrane protein
*	?	NC_000913	= 2913494	94 (1.040)	5 (0.060)	5/260	NT	5.1%	coding (158/2235 nt)	relA	(p)ppGpp synthetase I/GTP pyrophosphokinase
	?	NC_000913	= 2913514	95 (1.110)					coding (138/2235 nt)	relA	(p)ppGpp synthetase I/GTP pyrophosphokinase
*	?	NC_000913	2919605 =	85 (0.940)	4 (0.050)	3/262	NT	5.0%	coding (1142/1341 nt)	gudX	glucarate dehydratase‑related protein, substrate unknown
	?	NC_000913	2919645 =	70 (0.810)					coding (1102/1341 nt)	gudX	glucarate dehydratase‑related protein, substrate unknown
*	?	NC_000913	= 2928926	74 (0.820)	4 (0.050)	4/260	NT	5.2%	coding (698/1290 nt)	sdaC	putative serine transporter
	?	NC_000913	= 2928943	75 (0.880)					coding (715/1290 nt)	sdaC	putative serine transporter
*	?	NC_000913	= 2973947	72 (0.800)	5 (0.060)	5/262	NT	6.2%	coding (2068/2160 nt)	aas	fused 2‑acylglycerophospho‑ethanolamine acyl transferase/acyl‑acyl carrier protein synthetase
	?	NC_000913	= 2974027	82 (0.950)					coding (1988/2160 nt)	aas	fused 2‑acylglycerophospho‑ethanolamine acyl transferase/acyl‑acyl carrier protein synthetase
*	?	NC_000913	= 2982463	107 (1.190)	8 (0.090)	8/258	NT	7.2%	intergenic (‑281/+34)	araE/kduD	arabinose transporter/2‑dehydro‑3‑deoxy‑D‑gluconate 5‑dehydrogenase; KDG oxidoreductase; 20‑ketosteroid reductase
	?	NC_000913	= 2982467	106 (1.250)					intergenic (‑285/+30)	araE/kduD	arabinose transporter/2‑dehydro‑3‑deoxy‑D‑gluconate 5‑dehydrogenase; KDG oxidoreductase; 20‑ketosteroid reductase
*	?	NC_000913	= 3051660	72 (0.800)	6 (0.070)	3/260	NT	7.7%	coding (658/1203 nt)	ubiI	2‑octaprenylphenol hydroxylase, FAD‑dependent
	?	NC_000913	= 3051716	76 (0.890)					coding (602/1203 nt)	ubiI	2‑octaprenylphenol hydroxylase, FAD‑dependent
*	?	NC_000913	= 3092876	104 (1.150)	6 (0.070)	6/256	NT	5.7%	intergenic (+48/‑61)	gshB/yqgE	glutathione synthetase/uncharacterized protein
	?	NC_000913	= 3092893	102 (1.210)					intergenic (+65/‑44)	gshB/yqgE	glutathione synthetase/uncharacterized protein
*	?	NC_000913	3158885 =	65 (0.720)	5 (0.060)	5/260	NT	7.7%	intergenic (+1/+42)	yqhH/ygiQ	outer membrane lipoprotein, Lpp paralog/Radical SAM superfamily protein
	?	NC_000913	3158930 =	59 (0.690)					coding (2217/2220 nt)	ygiQ	Radical SAM superfamily protein
*	?	NC_000913	= 3161488	75 (0.830)	6 (0.070)	5/258	NT	7.6%	coding (1182/1413 nt)	ftsP	septal ring component that protects the divisome from stress; multicopy suppressor of ftsI(Ts)
	?	NC_000913	= 3161513	76 (0.890)					coding (1157/1413 nt)	ftsP	septal ring component that protects the divisome from stress; multicopy suppressor of ftsI(Ts)
*	?	NC_000913	3208471 =	74 (0.820)	8 (0.090)	6/266	NT	10.6%	coding (448/1464 nt)	ttdT	L‑tartrate/succinate antiporte
	?	NC_000913	3208518 =	63 (0.720)					coding (495/1464 nt)	ttdT	L‑tartrate/succinate antiporte
*	?	NC_000913	= 3248000	75 (0.830)	4 (0.050)	4/260	NT	5.5%	coding (228/663 nt)	yqjA	general envelope maintenance protein; DedA family inner membrane protein; putative multidrug efflux transporter
	?	NC_000913	= 3248023	67 (0.780)					coding (251/663 nt)	yqjA	general envelope maintenance protein; DedA family inner membrane protein; putative multidrug efflux transporter
*	?	NC_000913	= 3277213	110 (1.220)	10 (0.120)	6/258	NT	8.5%	coding (212/336 nt)	prlF	antitoxin of the SohA(PrlF)‑YhaV toxin‑antitoxin system
	?	NC_000913	= 3277242	113 (1.330)					coding (241/336 nt)	prlF	antitoxin of the SohA(PrlF)‑YhaV toxin‑antitoxin system
*	?	NC_000913	= 3333941	63 (0.700)	4 (0.050)	4/260	NT	5.8%	coding (232/972 nt)	ispB	octaprenyl diphosphate synthase
	?	NC_000913	= 3333966	71 (0.830)					coding (257/972 nt)	ispB	octaprenyl diphosphate synthase
*	?	NC_000913	3499211 =	141 (1.560)	7 (0.080)	6/260	NT	5.1%	intergenic (+10/‑237)	cysG/yhfL	fused siroheme synthase 1,3‑dimethyluroporphyriongen III dehydrogenase and siroheme ferrochelatase/uroporphyrinogen methyltransferase/small lipoprotein
	?	NC_000913	3499229 =	129 (1.510)					intergenic (+28/‑219)	cysG/yhfL	fused siroheme synthase 1,3‑dimethyluroporphyriongen III dehydrogenase and siroheme ferrochelatase/uroporphyrinogen methyltransferase/small lipoprotein
*	?	NC_000913	3542758 =	76 (0.840)	5 (0.060)	5/264	NT	6.6%	coding (31/237 nt)	feoC	putative DNA‑binding transcriptional regulator
	?	NC_000913	3542800 =	68 (0.780)					coding (73/237 nt)	feoC	putative DNA‑binding transcriptional regulator
*	?	NC_000913	= 3620350	NA (NA)	5 (0.060)	4/262	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	= 3663255	88 (0.980)	5 (0.060)	3/266	NT	5.4%	coding (2842/3114 nt)	mdtF	anaerobic multidrug efflux transporter, ArcA‑regulated
	?	NC_000913	= 3663306	90 (1.030)					coding (2893/3114 nt)	mdtF	anaerobic multidrug efflux transporter, ArcA‑regulated
*	?	NC_000913	= 3685751	63 (0.700)	4 (0.050)	3/264	NT	5.3%	coding (3423/3474 nt)	bcsC	cellulose synthase subunit
	?	NC_000913	= 3685795	81 (0.930)					coding (3379/3474 nt)	bcsC	cellulose synthase subunit
*	?	NC_000913	3688799 =	83 (0.920)	7 (0.080)	6/260	NT	8.4%	coding (375/3474 nt)	bcsC	cellulose synthase subunit
	?	NC_000913	3688841 =	74 (0.860)					coding (333/3474 nt)	bcsC	cellulose synthase subunit
*	?	NC_000913	3700088 =	77 (0.850)	6 (0.070)	6/258	NT	7.8%	intergenic (‑1/‑48)	ldrD/rdlD	toxic polypeptide, small/sRNA antisense regulator affects LdrD translation; proposed addiction module in LDR‑D repeat, with toxic peptide LdrD
	?	NC_000913	3700127 =	70 (0.820)					intergenic (‑40/‑9)	ldrD/rdlD	toxic polypeptide, small/sRNA antisense regulator affects LdrD translation; proposed addiction module in LDR‑D repeat, with toxic peptide LdrD
*	?	NC_000913	= 3722005	154 (1.710)	8 (0.090)	8/258	NT	5.1%	noncoding (1373/1443 nt)	IS150	repeat region
	?	NC_000913	= 3722024	154 (1.810)					noncoding (1392/1443 nt)	IS150	repeat region
*	?	NC_000913	3726887 =	86 (0.950)	10 (0.120)	9/252	NT	11.4%	intergenic (+5/+37)	wecH/yiaA	O‑acetyltransferase for enterobacterial common antigen (ECA)/YiaAB family inner membrane protein, tandem domains
	?	NC_000913	3726917 =	77 (0.930)					intergenic (+35/+7)	wecH/yiaA	O‑acetyltransferase for enterobacterial common antigen (ECA)/YiaAB family inner membrane protein, tandem domains
*	?	NC_000913	3736793 =	82 (0.910)	5 (0.060)	4/262	NT	5.8%	coding (385/825 nt)	bax	putative glucosaminidase
	?	NC_000913	3736845 =	83 (0.960)					coding (333/825 nt)	bax	putative glucosaminidase
*	?	NC_000913	3775583 =	70 (0.780)	5 (0.060)	4/258	NT	7.1%	coding (12/588 nt)	mtlR	mannitol operon repressor
	?	NC_000913	3775603 =	64 (0.750)					coding (32/588 nt)	mtlR	mannitol operon repressor
*	?	NC_000913	= 3836229	82 (0.910)	4 (0.050)	4/254	NT	5.1%	noncoding (8/95 nt)	selC	tRNA‑Sec
	?	NC_000913	= 3836304	73 (0.870)					noncoding (83/95 nt)	selC	tRNA‑Sec
*	?	NC_000913	3842381 =	82 (0.910)	5 (0.060)	5/260	NT	6.6%	coding (22/453 nt)	yicN	DUF1198 family protein
	?	NC_000913	3842451 =	63 (0.740)					intergenic (‑49/+4)	yicN/adeQ	DUF1198 family protein/adenine permease, high affinity; adenine:H+ symporter
*	?	NC_000913	= 3848312	73 (0.810)	4 (0.050)	4/256	NT	5.3%	coding (313/1320 nt)	uhpC	membrane protein regulates uhpT expression
	?	NC_000913	= 3848339	76 (0.900)					coding (286/1320 nt)	uhpC	membrane protein regulates uhpT expression
*	?	NC_000913	= 3881554	75 (0.830)	4 (0.050)	3/262	NT	5.0%	coding (768/1101 nt)	dnaN	DNA polymerase III, beta subunit
	?	NC_000913	= 3881597	80 (0.930)					coding (725/1101 nt)	dnaN	DNA polymerase III, beta subunit
*	?	NC_000913	3883414 =	86 (0.950)	6 (0.070)	6/256	NT	7.1%	coding (316/1404 nt)	dnaA	chromosomal replication initiator protein DnaA, DNA‑binding transcriptional dual regulator
	?	NC_000913	3883512 =	76 (0.900)					coding (218/1404 nt)	dnaA	chromosomal replication initiator protein DnaA, DNA‑binding transcriptional dual regulator
*	?	NC_000913	= 3884921	81 (0.900)	7 (0.080)	5/256	NT	8.3%	coding (106/258 nt)	yidD	membrane protein insertion efficiency factor, UPF0161 family inner membrane protein
	?	NC_000913	= 3884957	80 (0.950)					coding (142/258 nt)	yidD	membrane protein insertion efficiency factor, UPF0161 family inner membrane protein
*	?	NC_000913	= 3931793	91 (1.010)	6 (0.070)	6/258	NT	5.9%	coding (478/1869 nt)	kup	potassium transporter
	?	NC_000913	= 3931842	104 (1.220)					coding (527/1869 nt)	kup	potassium transporter
*	?	NC_000913	= 3943554	19 (0.210)	6 (0.070)	6/252	NT	25.6%	intergenic (+44/‑150)	gltU/rrlC	tRNA‑Glu/23S ribosomal RNA of rrnC operon
	?	NC_000913	= 3943572	NA (NA)					intergenic (+62/‑132)	gltU/rrlC	tRNA‑Glu/23S ribosomal RNA of rrnC operon
*	?	NC_000913	3968663 =	94 (1.040)	5 (0.060)	5/254	NT	5.6%	coding (748/1104 nt)	wecA	UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
	?	NC_000913	3968701 =	82 (0.980)					coding (786/1104 nt)	wecA	UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
*	?	NC_000913	= 3968934	82 (0.910)	5 (0.060)	5/264	NT	5.8%	coding (1019/1104 nt)	wecA	UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
	?	NC_000913	= 3968950	83 (0.950)					coding (1035/1104 nt)	wecA	UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
*	?	NC_000913	3974911 =	89 (0.990)	5 (0.060)	5/260	NT	5.9%	coding (445/675 nt)	wecD	TDP‑fucosamine acetyltransferase
	?	NC_000913	3974961 =	76 (0.890)					coding (495/675 nt)	wecD	TDP‑fucosamine acetyltransferase
*	?	NC_000913	= 4042456	93 (1.030)	6 (0.070)	6/256	NT	6.4%	coding (42/987 nt)	srkA	Cpx stress response Thr/Ser protein kinase; MazF antagonist protein
	?	NC_000913	= 4042486	88 (1.040)					coding (72/987 nt)	srkA	Cpx stress response Thr/Ser protein kinase; MazF antagonist protein
*	?	NC_000913	= 4098917	90 (1.000)	5 (0.060)	5/262	NT	5.6%	coding (272/849 nt)	rhaR	transcriptional activator of rhaSR
	?	NC_000913	= 4098978	81 (0.940)					coding (333/849 nt)	rhaR	transcriptional activator of rhaSR
*	?	NC_000913	= 4195041	71 (0.790)	4 (0.050)	4/262	NT	5.7%	coding (1059/1896 nt)	thiC	phosphomethylpyrimidine synthase
	?	NC_000913	= 4195063	64 (0.740)					coding (1037/1896 nt)	thiC	phosphomethylpyrimidine synthase
*	?	NC_000913	= 4259605	95 (1.050)	5 (0.060)	5/256	NT	5.4%	coding (399/516 nt)	zur	transcriptional repressor, Zn(II)‑binding
	?	NC_000913	= 4259639	87 (1.030)					coding (365/516 nt)	zur	transcriptional repressor, Zn(II)‑binding
*	?	NC_000913	= 4370063	62 (0.690)	4 (0.050)	4/266	NT	6.1%	coding (350/1257 nt)	yjeH	putative transporter
	?	NC_000913	= 4370110	63 (0.720)					coding (303/1257 nt)	yjeH	putative transporter
*	?	NC_000913	4377070 =	84 (0.930)	5 (0.060)	3/262	NT	6.2%	coding (196/318 nt)	sugE	multidrug efflux system protein
	?	NC_000913	4377134 =	70 (0.810)					coding (260/318 nt)	sugE	multidrug efflux system protein
*	?	NC_000913	= 4384719	80 (0.890)	7 (0.080)	6/258	NT	9.1%	coding (881/1503 nt)	yjeM	putative transporter
	?	NC_000913	= 4384746	65 (0.770)					coding (908/1503 nt)	yjeM	putative transporter
*	?	NC_000913	4474083 =	69 (0.760)	5 (0.060)	4/252	NT	7.2%	intergenic (‑30/‑41)	bdcA/bdcR	c‑di‑GMP‑binding biofilm dispersal mediator protein/transcriptional repressor for divergent bdcA
	?	NC_000913	4474127 =	65 (0.780)					coding (4/594 nt)	bdcR	transcriptional repressor for divergent bdcA
*	?	NC_000913	4497494 =	116 (1.290)	6 (0.070)	5/262	NT	5.2%	pseudogene (820/1266 nt)	intB	pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase
	?	NC_000913	4497532 =	110 (1.280)					pseudogene (858/1266 nt)	intB	pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase
*	?	NC_000913	4537511 =	87 (0.960)	5 (0.060)	3/264	NT	5.5%	coding (84/981 nt)	nanS	9‑O‑acetyl N‑acetylneuraminic acid esterase
	?	NC_000913	4537544 =	88 (1.010)					coding (51/981 nt)	nanS	9‑O‑acetyl N‑acetylneuraminic acid esterase
*	?	NC_000913	4542682 =	176 (1.950)	23 (0.270)	19/256	NT	13.3%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	4542996 =	135 (1.600)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
*	?	NC_000913	= 4542690	179 (1.980)	16 (0.190)	16/256	NT	9.6%	intergenic (+57/‑425)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	= 4542986	135 (1.600)					intergenic (+353/‑129)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
*	?	NC_000913	= 4553014	86 (0.950)	7 (0.080)	5/266	NT	7.7%	coding (114/1461 nt)	uxuB	D‑mannonate oxidoreductase, NAD‑dependent
	?	NC_000913	= 4553055	85 (0.970)					coding (155/1461 nt)	uxuB	D‑mannonate oxidoreductase, NAD‑dependent
*	?	NC_000913	4586194 =	70 (0.780)	4 (0.050)	4/266	NT	5.7%	coding (568/3513 nt)	hsdR	endonuclease R Type I restriction enzyme
	?	NC_000913	4586241 =	64 (0.730)					coding (521/3513 nt)	hsdR	endonuclease R Type I restriction enzyme
*	?	NC_000913	= 4596725	75 (0.830)	6 (0.070)	6/266	NT	7.0%	coding (736/1023 nt)	lgoD	L‑galactonate oxidoreductase; L‑gulonate oxidoreductase
	?	NC_000913	= 4596761	86 (0.980)					coding (772/1023 nt)	lgoD	L‑galactonate oxidoreductase; L‑gulonate oxidoreductase
*	?	NC_000913	4606855 =	86 (0.950)	5 (0.060)	5/264	NT	5.7%	coding (846/1032 nt)	rsmC	16S rRNA m(2)G1207 methyltransferase, SAM‑dependent
	?	NC_000913	4606896 =	84 (0.970)					coding (805/1032 nt)	rsmC	16S rRNA m(2)G1207 methyltransferase, SAM‑dependent
*	?	NC_000913	= 4638146	71 (0.790)	5 (0.060)	4/252	NT	6.3%	intergenic (+26/‑32)	creC/creD	sensory histidine kinase in two‑component regulatory system with CreB or PhoB/inner membrane protein
	?	NC_000913	= 4638170	84 (1.010)					intergenic (+50/‑8)	creC/creD	sensory histidine kinase in two‑component regulatory system with CreB or PhoB/inner membrane protein