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

Predicted mutations
evidence	position	mutation	freq	annotation	gene	description
RA	237	A→T	6.6%	T16T (ACA→ACT)	thrL →	thr operon leader peptide
RA	13,586	C→A	5.6%	T475N (ACC→AAC)	dnaK →	chaperone Hsp70, with co‑chaperone DnaJ
RA	44,216	G→A	5.8%	A13T (GCA→ACA)	fixC →	putative oxidoreductase
RA	74,162	C→T	6.7%	W120* (TGG→TGA)	thiP ←	thiamine/thiamine pyrophosphate ABC transporter permease
RA	83,587	A→C	8.0%	intergenic (‑58/+35)	leuA ← / ← leuL	2‑isopropylmalate synthase/leu operon leader peptide
RA	83,590	G→T	7.9%	intergenic (‑61/+32)	leuA ← / ← leuL	2‑isopropylmalate synthase/leu operon leader peptide
RA	88,941	T→A	7.1%	L305Q (CTG→CAG)	cra →	transcriptional repressor‑activator for carbon metabolism
RA	88,945	A→T	7.5%	A306A (GCA→GCT)	cra →	transcriptional repressor‑activator for carbon metabolism
RA	88,946	A→T	8.7%	S307C (AGC→TGC)	cra →	transcriptional repressor‑activator for carbon metabolism
RA	88,950	T→A	7.3%	L308Q (CTG→CAG)	cra →	transcriptional repressor‑activator for carbon metabolism
RA	97,173	T→C	6.2%	G29G (GGT→GGC)	murD →	UDP‑N‑acetylmuramoyl‑L‑alanine:D‑glutamate ligase
RA	97,176	G→C	6.1%	V30V (GTG→GTC)	murD →	UDP‑N‑acetylmuramoyl‑L‑alanine:D‑glutamate ligase
RA	103,611	A→T	6.8%	S153C (AGC→TGC)	ftsQ →	divisome assembly protein, membrane anchored protein involved in growth of wall at septum
RA	103,614	A→T	6.9%	K154* (AAG→TAG) ‡	ftsQ →	divisome assembly protein, membrane anchored protein involved in growth of wall at septum
RA	103,615	A→T	6.6%	K154M (AAG→ATG) ‡	ftsQ →	divisome assembly protein, membrane anchored protein involved in growth of wall at septum
RA	103,618	A→T	7.8%	Q155L (CAG→CTG)	ftsQ →	divisome assembly protein, membrane anchored protein involved in growth of wall at septum
RA	111,013	G→A	5.9%	intergenic (+29/‑31)	secA → / → mutT	preprotein translocase subunit, ATPase/dGTP‑preferring nucleoside triphosphate pyrophosphohydrolase
RA	111,016	T→C	6.2%	intergenic (+32/‑28)	secA → / → mutT	preprotein translocase subunit, ATPase/dGTP‑preferring nucleoside triphosphate pyrophosphohydrolase
RA	114,510	A→T	7.7%	intergenic (+23/+12)	guaC → / ← hofC	GMP reductase/assembly protein in type IV pilin biogenesis, transmembrane protein
RA	120,158:1	+A	5.1%	intergenic (+23/+20)	ampE → / ← aroP	ampicillin resistance inner membrane protein; putative signaling protein in beta‑lactamase regulation/aromatic amino acid transporter
RA	124,856	G→T	10.8%	A614S (GCG→TCG)	aceE →	pyruvate dehydrogenase, decarboxylase component E1, thiamine triphosphate‑binding
RA	124,859	G→C	12.6%	A615P (GCT→CCT) ‡	aceE →	pyruvate dehydrogenase, decarboxylase component E1, thiamine triphosphate‑binding
RA	124,861	T→A	11.1%	A615A (GCT→GCA) ‡	aceE →	pyruvate dehydrogenase, decarboxylase component E1, thiamine triphosphate‑binding
RA	124,863	G→C	11.9%	G616A (GGC→GCC)	aceE →	pyruvate dehydrogenase, decarboxylase component E1, thiamine triphosphate‑binding
RA	124,866	A→C	11.6%	D617A (GAC→GCC)	aceE →	pyruvate dehydrogenase, decarboxylase component E1, thiamine triphosphate‑binding
RA	134,166	A→G	7.5%	Q851R (CAG→CGG)	acnB →	aconitate hydratase 2; aconitase B; 2‑methyl‑cis‑aconitate hydratase
RA	134,169	A→G	7.5%	Y852C (TAC→TGC) ‡	acnB →	aconitate hydratase 2; aconitase B; 2‑methyl‑cis‑aconitate hydratase
RA	134,170	C→T	7.5%	Y852Y (TAC→TAT) ‡	acnB →	aconitate hydratase 2; aconitase B; 2‑methyl‑cis‑aconitate hydratase
RA	134,173	C→T	7.6%	T853T (ACC→ACT)	acnB →	aconitate hydratase 2; aconitase B; 2‑methyl‑cis‑aconitate hydratase
RA	136,530	C→T	5.9%	intergenic (‑66/+40)	speE ← / ← yacC	spermidine synthase (putrescine aminopropyltransferase)/PulS_OutS family protein
RA	136,532	G→C	5.6%	intergenic (‑68/+38)	speE ← / ← yacC	spermidine synthase (putrescine aminopropyltransferase)/PulS_OutS family protein
RA	136,535	G→C	6.2%	intergenic (‑71/+35)	speE ← / ← yacC	spermidine synthase (putrescine aminopropyltransferase)/PulS_OutS family protein
RA	136,537	A→G	5.7%	intergenic (‑73/+33)	speE ← / ← yacC	spermidine synthase (putrescine aminopropyltransferase)/PulS_OutS family protein
RA	143,533	T→C	5.9%	L252P (CTG→CCG) ‡	yadG →	putative ABC transporter ATPase
RA	143,534	G→A	5.7%	L252L (CTG→CTA) ‡	yadG →	putative ABC transporter ATPase
RA	146,289	G→T	8.0%	V403V (GTG→GTT)	yadE →	putative polysaccharide deacetylase lipoprotein
RA	146,291	G→C	9.2%	S404T (AGT→ACT)	yadE →	putative polysaccharide deacetylase lipoprotein
RA	146,293	A→C	6.5%	N405H (AAC→CAC)	yadE →	putative polysaccharide deacetylase lipoprotein
RA	146,733	G→A	10.6%	intergenic (‑39/‑235)	panD ← / → yadD	aspartate 1‑decarboxylase/transposase_31 family protein
RA	146,734	A→T	10.8%	intergenic (‑40/‑234)	panD ← / → yadD	aspartate 1‑decarboxylase/transposase_31 family protein
RA	146,735	T→C	10.5%	intergenic (‑41/‑233)	panD ← / → yadD	aspartate 1‑decarboxylase/transposase_31 family protein
RA	165,038	T→G	5.5%	P103P (CCT→CCG)	mrcB →	fused glycosyl transferase and transpeptidase
RA	169,748	T→A	5.8%	intergenic (+21/‑30)	fhuA → / → fhuC	ferrichrome outer membrane transporter/iron(3+)‑hydroxamate import ABC transporter ATPase
RA	169,749	T→A	5.8%	intergenic (+22/‑29)	fhuA → / → fhuC	ferrichrome outer membrane transporter/iron(3+)‑hydroxamate import ABC transporter ATPase
RA	173,566	A→G	7.5%	intergenic (+122/+36)	fhuB → / ← hemL	iron(3+)‑hydroxamate import ABC transporter permease/glutamate‑1‑semialdehyde aminotransferase (aminomutase)
RA	173,567	A→C	8.3%	intergenic (+123/+35)	fhuB → / ← hemL	iron(3+)‑hydroxamate import ABC transporter permease/glutamate‑1‑semialdehyde aminotransferase (aminomutase)
RA	173,573	T→G	7.9%	intergenic (+129/+29)	fhuB → / ← hemL	iron(3+)‑hydroxamate import ABC transporter permease/glutamate‑1‑semialdehyde aminotransferase (aminomutase)
RA	173,574	C→A	7.1%	intergenic (+130/+28)	fhuB → / ← hemL	iron(3+)‑hydroxamate import ABC transporter permease/glutamate‑1‑semialdehyde aminotransferase (aminomutase)
RA	173,580	G→T	5.4%	intergenic (+136/+22)	fhuB → / ← hemL	iron(3+)‑hydroxamate import ABC transporter permease/glutamate‑1‑semialdehyde aminotransferase (aminomutase)
RA	173,581	C→T	5.7%	intergenic (+137/+21)	fhuB → / ← hemL	iron(3+)‑hydroxamate import ABC transporter permease/glutamate‑1‑semialdehyde aminotransferase (aminomutase)
RA	176,977	A→G	6.6%	intergenic (+23/+24)	erpA → / ← yadS	iron‑sulfur cluster insertion protein/UPF0126 family inner membrane protein
RA	176,978	A→T	7.0%	intergenic (+24/+23)	erpA → / ← yadS	iron‑sulfur cluster insertion protein/UPF0126 family inner membrane protein
RA	176,979	C→T	8.7%	intergenic (+25/+22)	erpA → / ← yadS	iron‑sulfur cluster insertion protein/UPF0126 family inner membrane protein
RA	193,023	T→G	5.1%	L51R (CTG→CGG)	frr →	ribosome recycling factor
RA	216,066	A→G	6.7%	intergenic (+87/+113)	nlpE → / ← yaeF	lipoprotein involved with copper homeostasis and adhesion/putative lipoprotein
RA	216,067	A→C	6.8%	intergenic (+88/+112)	nlpE → / ← yaeF	lipoprotein involved with copper homeostasis and adhesion/putative lipoprotein
RA	216,073	T→A	8.0%	intergenic (+94/+106)	nlpE → / ← yaeF	lipoprotein involved with copper homeostasis and adhesion/putative lipoprotein
RA	216,074	T→A	8.1%	intergenic (+95/+105)	nlpE → / ← yaeF	lipoprotein involved with copper homeostasis and adhesion/putative lipoprotein
RA	216,080	G→T	7.2%	intergenic (+101/+99)	nlpE → / ← yaeF	lipoprotein involved with copper homeostasis and adhesion/putative lipoprotein
RA	216,081	C→T	7.2%	intergenic (+102/+98)	nlpE → / ← yaeF	lipoprotein involved with copper homeostasis and adhesion/putative lipoprotein
RA	222,105	C→A	5.1%	E181* (GAA→TAA)	metN ←	DL‑methionine transporter subunit
RA	225,467	G→T	31.3%	intergenic (+10/‑33)	ileV → / → alaV	tRNA‑Ile/tRNA‑Ala
RA	238,141	G→A	6.5%	intergenic (+21/+116)	yafT → / ← ykfM	lipoprotein/lethality reduction protein, putative inner membrane protein
RA	238,146	T→C	6.4%	intergenic (+26/+111)	yafT → / ← ykfM	lipoprotein/lethality reduction protein, putative inner membrane protein
RA	238,497	G→T	9.5%	I80I (ATC→ATA)	ykfM ←	lethality reduction protein, putative inner membrane protein
RA	238,535	G→T	16.6%	H68N (CAT→AAT)	ykfM ←	lethality reduction protein, putative inner membrane protein
MC JC	257,908	Δ776 bp	100%		[crl]	[crl]
RA	282,243	T→C	5.7%	intergenic (‑260/‑35)	yagA ← / → yagE	CP4‑6 prophage; putative DNA‑binding transcriptional regulator/2‑keto‑3‑deoxy gluconate (KDG) aldolase; CP4‑6 prophage
RA	282,245	A→T	5.7%	intergenic (‑262/‑33)	yagA ← / → yagE	CP4‑6 prophage; putative DNA‑binding transcriptional regulator/2‑keto‑3‑deoxy gluconate (KDG) aldolase; CP4‑6 prophage
RA	282,247	G→A	5.7%	intergenic (‑264/‑31)	yagA ← / → yagE	CP4‑6 prophage; putative DNA‑binding transcriptional regulator/2‑keto‑3‑deoxy gluconate (KDG) aldolase; CP4‑6 prophage
RA	285,882	T→G	7.1%	I163S (ATC→AGC)	yagG →	CP4‑6 prophage; putative sugar transporter
RA	285,887	C→A	5.1%	L165M (CTG→ATG)	yagG →	CP4‑6 prophage; putative sugar transporter
RA	292,302	C→G	5.2%	intergenic (+71/+20)	yagJ → / ← yagK	CP4‑6 prophage; uncharacterized protein;Phage or Prophage Related/CP4‑6 prophage; conserved protein
RA	304,083	G→T	5.9%	P34T (CCC→ACC)	ykgJ ←	UPF0153 cysteine cluster protein
RA	304,085	A→C	5.3%	I33S (ATT→AGT)	ykgJ ←	UPF0153 cysteine cluster protein
RA	304,088	G→T	5.3%	T32N (ACT→AAT)	ykgJ ←	UPF0153 cysteine cluster protein
RA	304,090	A→C	5.5%	G31G (GGT→GGG)	ykgJ ←	UPF0153 cysteine cluster protein
RA	314,255	T→C	6.2%	intergenic (‑450/‑102)	ykgP ← / → eaeH	pseudogene, oxidoreductase family/pseudogene, attaching and effacing protein homology;factor; Not classified
RA	317,566	G→A	5.6%	pseudogene (128/129 nt)	ykgQ →	pseudogene, putative dehydrogenase
RA	324,874	T→G	6.4%	N164T (AAC→ACC)	ykgH ←	putative inner membrane protein
RA	329,503	A→G	7.6%	N14S (AAT→AGT)	betT →	choline transporter of high affinity
RA	329,509	T→C	7.6%	V16A (GTG→GCG)	betT →	choline transporter of high affinity
RA	329,512	T→A	7.0%	V17E (GTG→GAG)	betT →	choline transporter of high affinity
RA	329,514	T→G	8.3%	F18V (TTT→GTT) ‡	betT →	choline transporter of high affinity
RA	329,516	T→G	7.1%	F18L (TTT→TTG) ‡	betT →	choline transporter of high affinity
RA	329,519	C→A	7.4%	Y19* (TAC→TAA)	betT →	choline transporter of high affinity
RA	329,521	C→A	7.5%	T20N (ACC→AAC)	betT →	choline transporter of high affinity
RA	329,523	T→A	8.4%	S21T (TCC→ACC)	betT →	choline transporter of high affinity
RA	329,526	G→A	8.0%	A22T (GCC→ACC)	betT →	choline transporter of high affinity
RA	329,532	C→T	7.0%	L24L (CTG→TTG)	betT →	choline transporter of high affinity
RA	335,166	T→A	5.8%	intergenic (‑144/‑114)	yahC ← / → yahD	putative inner membrane protein/ankyrin repeat protein
RA	361,220	A→C	5.5%	intergenic (+74/+29)	cynX → / ← lacA	putative cyanate transporter/thiogalactoside acetyltransferase
RA	361,223	G→T	6.0%	intergenic (+77/+26)	cynX → / ← lacA	putative cyanate transporter/thiogalactoside acetyltransferase
RA	361,224	C→G	6.0%	intergenic (+78/+25)	cynX → / ← lacA	putative cyanate transporter/thiogalactoside acetyltransferase
RA	361,225	A→C	5.7%	intergenic (+79/+24)	cynX → / ← lacA	putative cyanate transporter/thiogalactoside acetyltransferase
RA	361,228	G→T	5.6%	intergenic (+82/+21)	cynX → / ← lacA	putative cyanate transporter/thiogalactoside acetyltransferase
RA	361,894	A→G	6.1%	intergenic (‑34/+32)	lacA ← / ← lacY	thiogalactoside acetyltransferase/lactose permease
RA	361,895	A→C	7.4%	intergenic (‑35/+31)	lacA ← / ← lacY	thiogalactoside acetyltransferase/lactose permease
RA	361,901	T→G	10.1%	intergenic (‑41/+25)	lacA ← / ← lacY	thiogalactoside acetyltransferase/lactose permease
RA	361,908	G→T	8.3%	intergenic (‑48/+18)	lacA ← / ← lacY	thiogalactoside acetyltransferase/lactose permease
RA	361,909	C→T	7.5%	intergenic (‑49/+17)	lacA ← / ← lacY	thiogalactoside acetyltransferase/lactose permease
RA	404,113	A→C	10.1%	A137A (GCA→GCC)	yaiC →	diguanylate cyclase, cellulose regualtor
RA	404,115	G→C	10.1%	G138A (GGC→GCC)	yaiC →	diguanylate cyclase, cellulose regualtor
RA	404,117	G→T	9.9%	G139C (GGC→TGC)	yaiC →	diguanylate cyclase, cellulose regualtor
RA	408,763	A→C	10.3%	pseudogene (155/342 nt)	ykiA →	pseudogene
RA	431,107	A→T	8.5%	intergenic (+155/+22)	yajD → / ← tsx	HNH nuclease family protein/nucleoside channel, receptor of phage T6 and colicin K
RA	431,109	A→T	8.4%	intergenic (+157/+20)	yajD → / ← tsx	HNH nuclease family protein/nucleoside channel, receptor of phage T6 and colicin K
RA	431,111	A→T	8.8%	intergenic (+159/+18)	yajD → / ← tsx	HNH nuclease family protein/nucleoside channel, receptor of phage T6 and colicin K
RA	432,020	G→C	5.1%	intergenic (‑7/+292)	tsx ← / ← yajI	nucleoside channel, receptor of phage T6 and colicin K/putative lipoprotein
RA	435,390	T→A	6.0%	L85Q (CTG→CAG)	nusB →	transcription antitermination protein
RA	435,402	T→A	5.3%	L89Q (CTG→CAG)	nusB →	transcription antitermination protein
RA	446,786	C→T	6.2%	intergenic (‑120/+29)	yajR ← / ← cyoE	putative transporter/protoheme IX farnesyltransferase
RA	446,787	G→A	6.3%	intergenic (‑121/+28)	yajR ← / ← cyoE	putative transporter/protoheme IX farnesyltransferase
RA	446,788	T→C	6.4%	intergenic (‑122/+27)	yajR ← / ← cyoE	putative transporter/protoheme IX farnesyltransferase
RA	446,789	A→G	6.4%	intergenic (‑123/+26)	yajR ← / ← cyoE	putative transporter/protoheme IX farnesyltransferase
RA	457,659	T→A	6.9%	V78V (GTT→GTA)	clpX →	ATPase and specificity subunit of ClpX‑ClpP ATP‑dependent serine protease
RA	475,971	C→G	9.6%	intergenic (+20/+11)	ybaY → / ← ybaZ	outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL
RA	475,972	C→G	9.9%	intergenic (+21/+10)	ybaY → / ← ybaZ	outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL
RA	480,236	C→G	7.9%	E25Q (GAG→CAG)	hha ←	modulator of gene expression, with H‑NS
RA	480,237	C→G	7.6%	L24L (CTG→CTC)	hha ←	modulator of gene expression, with H‑NS
RA	486,511	T→A	5.4%	intergenic (+103/‑25)	acrR → / → mscK	transcriptional repressor/mechanosensitive channel protein, intermediate conductance, K+ regulated
RA	493,126	T→G	6.0%	R345R (CGT→CGG)	dnaX →	DNA polymerase III/DNA elongation factor III, tau and gamma subunits
RA	494,032	A→T	10.0%	intergenic (+9/‑44)	dnaX → / → ybaB	DNA polymerase III/DNA elongation factor III, tau and gamma subunits/DNA‑binding protein, putative nucleoid‑associated protein
RA	494,033	C→G	9.9%	intergenic (+10/‑43)	dnaX → / → ybaB	DNA polymerase III/DNA elongation factor III, tau and gamma subunits/DNA‑binding protein, putative nucleoid‑associated protein
RA	494,034	A→T	10.4%	intergenic (+11/‑42)	dnaX → / → ybaB	DNA polymerase III/DNA elongation factor III, tau and gamma subunits/DNA‑binding protein, putative nucleoid‑associated protein
RA	501,455	A→G	10.2%	intergenic (+26/+107)	gsk → / ← ybaL	inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter
RA	501,456	A→C	10.4%	intergenic (+27/+106)	gsk → / ← ybaL	inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter
RA	501,462	T→G	14.0%	intergenic (+33/+100)	gsk → / ← ybaL	inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter
RA	501,463	C→A	14.0%	intergenic (+34/+99)	gsk → / ← ybaL	inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter
RA	501,469	G→T	14.0%	intergenic (+40/+93)	gsk → / ← ybaL	inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter
RA	501,470	C→T	13.9%	intergenic (+41/+92)	gsk → / ← ybaL	inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter
RA	518,860	A→G	11.5%	F97S (TTC→TCC)	ybbO ←	putative oxidoreductase
RA	518,863	C→T	11.5%	G96E (GGA→GAA)	ybbO ←	putative oxidoreductase
RA	533,846	T→C	5.8%	intergenic (+20/‑70)	allR → / → gcl	glyoxylate‑inducible transcriptional repressor of all and gcl operons/glyoxylate carboligase
RA	533,849	G→A	5.4%	intergenic (+23/‑67)	allR → / → gcl	glyoxylate‑inducible transcriptional repressor of all and gcl operons/glyoxylate carboligase
RA	537,973	T→A	5.4%	I114N (ATT→AAT)	ybbW →	putative allantoin transporter
RA	551,361	G→A	7.7%	intergenic (+29/+166)	ybcF → / ← purK	putative carbonate kinase/N5‑carboxyaminoimidazole ribonucleotide synthase
RA	551,362	C→A	7.4%	intergenic (+30/+165)	ybcF → / ← purK	putative carbonate kinase/N5‑carboxyaminoimidazole ribonucleotide synthase
RA	551,368	T→G	8.2%	intergenic (+36/+159)	ybcF → / ← purK	putative carbonate kinase/N5‑carboxyaminoimidazole ribonucleotide synthase
RA	551,370	G→C	7.3%	intergenic (+38/+157)	ybcF → / ← purK	putative carbonate kinase/N5‑carboxyaminoimidazole ribonucleotide synthase
RA	551,372	C→A	7.0%	intergenic (+40/+155)	ybcF → / ← purK	putative carbonate kinase/N5‑carboxyaminoimidazole ribonucleotide synthase
RA	551,378	T→G	7.1%	intergenic (+46/+149)	ybcF → / ← purK	putative carbonate kinase/N5‑carboxyaminoimidazole ribonucleotide synthase
RA	551,379	T→C	7.1%	intergenic (+47/+148)	ybcF → / ← purK	putative carbonate kinase/N5‑carboxyaminoimidazole ribonucleotide synthase
RA	566,354	A→G	7.5%	pseudogene (23/279 nt)	exoD ←	pseudogene, DLP12 prophage; phage‑type exonuclease family;Phage or Prophage Related
RA	566,367	C→T	7.6%	pseudogene (10/279 nt)	exoD ←	pseudogene, DLP12 prophage; phage‑type exonuclease family;Phage or Prophage Related
RA	582,558	T→A	6.8%	pseudogene (247/653 nt)	ybcY ←	pseudogene, DLP12 prophage; methyltransferase homology;Phage or Prophage Related
RA	632,126	A→G	6.3%	intergenic (+127/‑56)	cstA → / → ybdD	carbon starvation protein involved in peptide utilization; APC peptide transporter family protein/DUF466 family protein
RA	632,127	A→C	6.0%	intergenic (+128/‑55)	cstA → / → ybdD	carbon starvation protein involved in peptide utilization; APC peptide transporter family protein/DUF466 family protein
RA	632,133	T→G	7.8%	intergenic (+134/‑49)	cstA → / → ybdD	carbon starvation protein involved in peptide utilization; APC peptide transporter family protein/DUF466 family protein
RA	632,134	C→A	6.0%	intergenic (+135/‑48)	cstA → / → ybdD	carbon starvation protein involved in peptide utilization; APC peptide transporter family protein/DUF466 family protein
RA	644,030	A→G	8.3%	intergenic (‑63/+167)	rnk ← / ← rna	regulator of nucleoside diphosphate kinase/ribonuclease I
RA	644,034	T→C	8.2%	intergenic (‑67/+163)	rnk ← / ← rna	regulator of nucleoside diphosphate kinase/ribonuclease I
RA	644,036	A→T	7.8%	intergenic (‑69/+161)	rnk ← / ← rna	regulator of nucleoside diphosphate kinase/ribonuclease I
RA	644,038	G→A	8.1%	intergenic (‑71/+159)	rnk ← / ← rna	regulator of nucleoside diphosphate kinase/ribonuclease I
RA	644,042	C→T	9.1%	intergenic (‑75/+155)	rnk ← / ← rna	regulator of nucleoside diphosphate kinase/ribonuclease I
RA	645,069	G→A	5.3%	intergenic (‑66/+48)	rna ← / ← citT	ribonuclease I/citrate/succinate antiporter; citrate carrier
RA	645,070	G→A	5.3%	intergenic (‑67/+47)	rna ← / ← citT	ribonuclease I/citrate/succinate antiporter; citrate carrier
RA	645,073	T→C	5.4%	intergenic (‑70/+44)	rna ← / ← citT	ribonuclease I/citrate/succinate antiporter; citrate carrier
RA	645,074	T→C	5.4%	intergenic (‑71/+43)	rna ← / ← citT	ribonuclease I/citrate/succinate antiporter; citrate carrier
RA	654,560	A→C	6.4%	intergenic (+18/+23)	citB → / ← dcuC	response regulator in two‑component regulatory system with CitA/anaerobic C4‑dicarboxylate transport
RA	654,563	C→G	5.7%	intergenic (+21/+20)	citB → / ← dcuC	response regulator in two‑component regulatory system with CitA/anaerobic C4‑dicarboxylate transport
RA	654,566	G→T	5.7%	intergenic (+24/+17)	citB → / ← dcuC	response regulator in two‑component regulatory system with CitA/anaerobic C4‑dicarboxylate transport
RA	657,531	T→G	8.6%	intergenic (+30/+24)	cspE → / ← flc	constitutive cold shock family transcription antitermination protein; negative regulator of cspA transcription; RNA melting protein; ssDNA‑binding protein/fluoride efflux channel, dual topology membrane protein
RA	657,533	A→T	8.6%	intergenic (+32/+22)	cspE → / ← flc	constitutive cold shock family transcription antitermination protein; negative regulator of cspA transcription; RNA melting protein; ssDNA‑binding protein/fluoride efflux channel, dual topology membrane protein
RA	657,535	C→A	9.6%	intergenic (+34/+20)	cspE → / ← flc	constitutive cold shock family transcription antitermination protein; negative regulator of cspA transcription; RNA melting protein; ssDNA‑binding protein/fluoride efflux channel, dual topology membrane protein
RA	659,204	C→T	14.1%	intergenic (+54/+47)	tatE → / ← lipA	TatABCE protein translocation system subunit/lipoate synthase
RA	659,205	A→T	14.1%	intergenic (+55/+46)	tatE → / ← lipA	TatABCE protein translocation system subunit/lipoate synthase
RA	659,206	A→T	14.0%	intergenic (+56/+45)	tatE → / ← lipA	TatABCE protein translocation system subunit/lipoate synthase
RA	659,207	A→G	14.1%	intergenic (+57/+44)	tatE → / ← lipA	TatABCE protein translocation system subunit/lipoate synthase
RA	662,683	A→T	5.3%	intergenic (‑41/+69)	ybeD ← / ← dacA	UPF0250 family protein/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 5)
RA	662,684	G→T	6.0%	intergenic (‑42/+68)	ybeD ← / ← dacA	UPF0250 family protein/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 5)
RA	662,685	A→C	6.0%	intergenic (‑43/+67)	ybeD ← / ← dacA	UPF0250 family protein/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 5)
RA	662,686	A→T	6.5%	intergenic (‑44/+66)	ybeD ← / ← dacA	UPF0250 family protein/D‑alanyl‑D‑alanine carboxypeptidase (penicillin‑binding protein 5)
RA	665,094	G→C	5.7%	P33A (CCT→GCT)	rlpA ←	septal ring protein, suppressor of prc, minor lipoprotein
RA	681,694	A→G	13.8%	intergenic (+31/+29)	djlC → / ← hscC	J domain‑containing HscC co‑chaperone; Hsc56/Hsp70 family chaperone Hsc62; RpoD‑binding transcription inhibitor
RA	681,699	T→A	12.9%	intergenic (+36/+24)	djlC → / ← hscC	J domain‑containing HscC co‑chaperone; Hsc56/Hsp70 family chaperone Hsc62; RpoD‑binding transcription inhibitor
RA	681,700	T→A	14.4%	intergenic (+37/+23)	djlC → / ← hscC	J domain‑containing HscC co‑chaperone; Hsc56/Hsp70 family chaperone Hsc62; RpoD‑binding transcription inhibitor
RA	681,705	C→T	14.0%	intergenic (+42/+18)	djlC → / ← hscC	J domain‑containing HscC co‑chaperone; Hsc56/Hsp70 family chaperone Hsc62; RpoD‑binding transcription inhibitor
RA	699,432	G→A	5.3%	intergenic (‑255/+142)	asnB ← / ← umpH	asparagine synthetase B/UMP phosphatase
RA	699,433	C→A	5.3%	intergenic (‑256/+141)	asnB ← / ← umpH	asparagine synthetase B/UMP phosphatase
RA	699,439	G→T	5.4%	intergenic (‑262/+135)	asnB ← / ← umpH	asparagine synthetase B/UMP phosphatase
RA	699,440	A→C	5.5%	intergenic (‑263/+134)	asnB ← / ← umpH	asparagine synthetase B/UMP phosphatase
RA	699,556	C→T	8.3%	intergenic (‑379/+18)	asnB ← / ← umpH	asparagine synthetase B/UMP phosphatase
RA	699,559	A→G	8.1%	intergenic (‑382/+15)	asnB ← / ← umpH	asparagine synthetase B/UMP phosphatase
RA	725,276	G→A	6.6%	Y587Y (TAC→TAT)	kdpB ←	potassium translocating ATPase, subunit B
RA	725,279	T→C	5.9%	K586K (AAA→AAG)	kdpB ←	potassium translocating ATPase, subunit B
RA	729,376	G→T	9.4%	intergenic (+36/‑207)	ybfA → / → rhsC	DUF2517 family protein/Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor
RA	729,377	A→T	7.7%	intergenic (+37/‑206)	ybfA → / → rhsC	DUF2517 family protein/Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor
RA	729,378	A→T	7.6%	intergenic (+38/‑205)	ybfA → / → rhsC	DUF2517 family protein/Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor
RA	729,379	A→C	9.3%	intergenic (+39/‑204)	ybfA → / → rhsC	DUF2517 family protein/Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor
RA	749,644	C→A	8.0%	V22L (GTG→TTG)	ybgP ←	putative periplasmic pilin chaperone
RA	749,645	C→T	7.1%	A21A (GCG→GCA)	ybgP ←	putative periplasmic pilin chaperone
RA	749,648	A→T	7.2%	A20A (GCT→GCA)	ybgP ←	putative periplasmic pilin chaperone
RA	749,651	A→G	7.2%	N19N (AAT→AAC) ‡	ybgP ←	putative periplasmic pilin chaperone
RA	749,652	T→G	7.1%	N19T (AAT→ACT) ‡	ybgP ←	putative periplasmic pilin chaperone
RA	757,717	A→G	7.9%	Y10C (TAT→TGT)	sdhB →	succinate dehydrogenase, FeS subunit
RA	762,863	A→C	5.6%	intergenic (+124/‑151)	sucB → / → sucC	dihydrolipoyltranssuccinase/succinyl‑CoA synthetase, beta subunit
RA	773,553	T→C	6.5%	L171P (CTG→CCG) ‡	cydB →	cytochrome d terminal oxidase, subunit II
RA	773,554	G→A	6.6%	L171L (CTG→CTA) ‡	cydB →	cytochrome d terminal oxidase, subunit II
RA	777,630	G→A	5.7%	intergenic (+23/‑110)	tolA → / → tolB	membrane anchored protein in TolA‑TolQ‑TolR complex/periplasmic protein
RA	779,660	C→G	5.2%	P21P (CCC→CCG)	ybgF →	periplasmic TolA‑binding protein
RA	779,661	T→G	6.7%	W22G (TGG→GGG)	ybgF →	periplasmic TolA‑binding protein
RA	782,999	T→G	6.8%	L305L (CTT→CTG)	nadA →	quinolinate synthase, subunit A
RA	783,000	C→A	5.9%	Q306K (CAG→AAG)	nadA →	quinolinate synthase, subunit A
RA	801,861	G→C	5.7%	intergenic (+50/‑26)	ybhH → / → ybhI	putative PrpF family isomerase/putative DASS family tricarboxylate or dicarboxylate transporter
RA	805,312	G→T	6.8%	E604* (GAG→TAG) ‡	ybhJ →	aconitase family protein
RA	805,313	A→C	7.3%	E604A (GAG→GCG) ‡	ybhJ →	aconitase family protein
RA	815,440	C→G	5.0%	L639V (CTG→GTG)	uvrB →	exision nuclease of nucleotide excision repair, DNA damage recognition component
RA	815,666	T→G	5.1%	intergenic (+119/+73)	uvrB → / ← ybhK	exision nuclease of nucleotide excision repair, DNA damage recognition component/putative CofD superfamily transferase
RA	830,667	T→C	5.2%	intergenic (‑24/‑205)	ybiH ← / → rhlE	DUF1956 domain‑containing tetR family putative transcriptional regulator/ATP‑dependent RNA helicase
RA	830,668	G→A	5.1%	intergenic (‑25/‑204)	ybiH ← / → rhlE	DUF1956 domain‑containing tetR family putative transcriptional regulator/ATP‑dependent RNA helicase
RA	830,669	A→T	5.1%	intergenic (‑26/‑203)	ybiH ← / → rhlE	DUF1956 domain‑containing tetR family putative transcriptional regulator/ATP‑dependent RNA helicase
RA	832,597	G→T	5.4%	T118T (ACC→ACA) ‡	ybiA ←	DUF1768 family protein
RA	832,598	G→C	5.4%	T118S (ACC→AGC) ‡	ybiA ←	DUF1768 family protein
RA	832,603	C→T	5.5%	L116L (CTG→CTA) ‡	ybiA ←	DUF1768 family protein
RA	832,604	A→G	5.6%	L116P (CTG→CCG) ‡	ybiA ←	DUF1768 family protein
RA	832,609	G→C	5.8%	L114L (CTC→CTG) ‡	ybiA ←	DUF1768 family protein
RA	832,610	A→C	5.8%	L114R (CTC→CGC) ‡	ybiA ←	DUF1768 family protein
RA	848,350	C→T	6.0%	intergenic (‑346/+58)	glnH ← / ← dps	glutamine transporter subunit/Fe‑binding and storage protein; stress‑inducible DNA‑binding protein
RA	848,356	T→A	5.6%	intergenic (‑352/+52)	glnH ← / ← dps	glutamine transporter subunit/Fe‑binding and storage protein; stress‑inducible DNA‑binding protein
RA	848,362	A→G	6.2%	intergenic (‑358/+46)	glnH ← / ← dps	glutamine transporter subunit/Fe‑binding and storage protein; stress‑inducible DNA‑binding protein
RA	857,576	T→C	10.3%	intergenic (+21/+220)	ybiT → / ← ybiU	ABC‑F family putative regulatory ATPase/DUF1479 family protein
RA	857,578	C→G	10.5%	intergenic (+23/+218)	ybiT → / ← ybiU	ABC‑F family putative regulatory ATPase/DUF1479 family protein
RA	857,580	G→A	10.5%	intergenic (+25/+216)	ybiT → / ← ybiU	ABC‑F family putative regulatory ATPase/DUF1479 family protein
RA	867,146	A→C	6.5%	A193A (GCA→GCC)	iaaA →	Isoaspartyl peptidase
RA	871,316	G→T	6.2%	G117V (GGA→GTA)	gsiC →	glutathione ABC transporter permease
RA	877,017	T→C	7.8%	E340G (GAA→GGA)	rimO ←	ribosomal protein S12 methylthiotransferase
RA	887,392	T→A	8.3%	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	8.0%	intergenic (‑54/‑30)	ybjJ ← / → rcdA	putative drug efflux MFS transporter, inner membrane protein/transcriptional regulator of csgD and ybiJI; autoregulator
RA	892,441	G→A	6.9%	A159T (GCG→ACG) ‡	rimK →	ribosomal protein S6 modification protein
RA	892,443	G→C	6.8%	A159A (GCG→GCC) ‡	rimK →	ribosomal protein S6 modification protein
RA	892,455	G→C	8.6%	V163V (GTG→GTC)	rimK →	ribosomal protein S6 modification protein
RA	892,457	T→A	10.4%	I164N (ATT→AAT)	rimK →	ribosomal protein S6 modification protein
RA	892,459	G→C	8.0%	D165H (GAC→CAC)	rimK →	ribosomal protein S6 modification protein
RA	911,214	A→G	6.3%	C313R (TGC→CGC)	hcr ←	HCP oxidoreductase, NADH‑dependent
RA	916,406	G→A	6.1%	intergenic (‑359/‑67)	aqpZ ← / → ybjD	aquaporin Z/putative OLD family ATP‑dependent endonuclease; DUF2813 family protein
RA	916,408	A→T	6.1%	intergenic (‑361/‑65)	aqpZ ← / → ybjD	aquaporin Z/putative OLD family ATP‑dependent endonuclease; DUF2813 family protein
RA	916,410	T→A	7.2%	intergenic (‑363/‑63)	aqpZ ← / → ybjD	aquaporin Z/putative OLD family ATP‑dependent endonuclease; DUF2813 family protein
RA	918,119	T→C	5.7%	G549G (GGT→GGC)	ybjD →	putative OLD family ATP‑dependent endonuclease; DUF2813 family protein
RA	922,314:1	+C	8.3%	intergenic (+21/+52)	macB → / ← cspD	macrolide ABC transporter peremase/ATPase/inhibitor of DNA replication, cold shock protein homolog
RA	925,574	T→C	6.9%	intergenic (+34/+310)	clpA → / ← serW	ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity/tRNA‑Ser
RA	925,578	G→T	7.4%	intergenic (+38/+306)	clpA → / ← serW	ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity/tRNA‑Ser
RA	925,579	A→T	6.7%	intergenic (+39/+305)	clpA → / ← serW	ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity/tRNA‑Ser
RA	925,580	A→T	8.4%	intergenic (+40/+304)	clpA → / ← serW	ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity/tRNA‑Ser
RA	925,581	A→C	8.3%	intergenic (+41/+303)	clpA → / ← serW	ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity/tRNA‑Ser
RA	925,585	G→A	6.8%	intergenic (+45/+299)	clpA → / ← serW	ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity/tRNA‑Ser
RA	928,447	A→G	5.4%	I250T (ATA→ACA)	cydC ←	glutathione/cysteine ABC transporter export permease/ATPase
RA	928,453	T→A	5.3%	Q248L (CAA→CTA)	cydC ←	glutathione/cysteine ABC transporter export permease/ATPase
RA	928,458	C→T	5.5%	L246L (TTG→TTA)	cydC ←	glutathione/cysteine ABC transporter export permease/ATPase
RA	934,186	T→C	5.4%	A321A (GCT→GCC)	ftsK →	DNA translocase at septal ring sorting daughter chromsomes
RA	934,189	A→G	5.1%	V322V (GTA→GTG)	ftsK →	DNA translocase at septal ring sorting daughter chromsomes
RA	934,191	C→T	5.2%	A323V (GCA→GTA)	ftsK →	DNA translocase at septal ring sorting daughter chromsomes
RA	934,195	T→A	7.3%	A324A (GCT→GCA)	ftsK →	DNA translocase at septal ring sorting daughter chromsomes
RA	934,198	T→A	5.3%	A325A (GCT→GCA)	ftsK →	DNA translocase at septal ring sorting daughter chromsomes
RA	934,202	A→G	5.0%	T327A (ACC→GCC) ‡	ftsK →	DNA translocase at septal ring sorting daughter chromsomes
RA	934,204	C→T	5.1%	T327T (ACC→ACT) ‡	ftsK →	DNA translocase at septal ring sorting daughter chromsomes
RA	934,207	G→A	5.5%	T328T (ACG→ACA)	ftsK →	DNA translocase at septal ring sorting daughter chromsomes
RA	950,646	A→G	8.6%	V145V (GTT→GTC) ‡	pflA ←	pyruvate formate‑lyase 1‑activating enzyme; [formate‑C‑acetyltransferase 1]‑activating enzyme; PFL activase
RA	950,647	A→T	9.3%	V145D (GTT→GAT) ‡	pflA ←	pyruvate formate‑lyase 1‑activating enzyme; [formate‑C‑acetyltransferase 1]‑activating enzyme; PFL activase
RA	950,648	C→T	8.2%	V145I (GTT→ATT) ‡	pflA ←	pyruvate formate‑lyase 1‑activating enzyme; [formate‑C‑acetyltransferase 1]‑activating enzyme; PFL activase
RA	963,943	A→G	5.4%	Q39R (CAG→CGG)	ihfB →	integration host factor (IHF), DNA‑binding protein, beta subunit
RA	985,853	C→T	6.1%	intergenic (‑144/+41)	aspC ← / ← ompF	aspartate aminotransferase, PLP‑dependent/outer membrane porin 1a (Ia;b;F)
RA	985,854	A→T	6.0%	intergenic (‑145/+40)	aspC ← / ← ompF	aspartate aminotransferase, PLP‑dependent/outer membrane porin 1a (Ia;b;F)
RA	985,855	A→T	6.2%	intergenic (‑146/+39)	aspC ← / ← ompF	aspartate aminotransferase, PLP‑dependent/outer membrane porin 1a (Ia;b;F)
RA	985,856	A→G	6.2%	intergenic (‑147/+38)	aspC ← / ← ompF	aspartate aminotransferase, PLP‑dependent/outer membrane porin 1a (Ia;b;F)
RA	1,000,128	T→G	6.8%	Y305D (TAC→GAC) ‡	elfC →	putative outer membrane fimbrial subunit export usher protein
RA	1,000,129	A→T	6.7%	Y305F (TAC→TTC) ‡	elfC →	putative outer membrane fimbrial subunit export usher protein
RA	1,000,130	C→A	6.2%	Y305* (TAC→TAA) ‡	elfC →	putative outer membrane fimbrial subunit export usher protein
RA	1,015,912	T→A	8.0%	intergenic (+30/+40)	rmf → / ← fabA	ribosome modulation factor/beta‑hydroxydecanoyl thioester dehydrase
RA	1,018,249	G→C	7.8%	S17R (AGC→AGG) ‡	ycbZ ←	putative peptidase
RA	1,018,251	T→G	7.9%	S17R (AGC→CGC) ‡	ycbZ ←	putative peptidase
RA	1,018,254	C→A	7.0%	D16Y (GAT→TAT)	ycbZ ←	putative peptidase
RA	1,018,256	G→C	7.4%	T15S (ACC→AGC)	ycbZ ←	putative peptidase
RA	1,038,117	C→G	6.6%	H126Q (CAC→CAG)	cbdA →	cytochrome bd‑II oxidase, subunit I
RA	1,038,118	C→G	7.4%	L127V (CTG→GTG)	cbdA →	cytochrome bd‑II oxidase, subunit I
RA	1,060,121	T→G	9.3%	V289G (GTT→GGT)	torA →	trimethylamine N‑oxide (TMAO) reductase I, catalytic subunit
RA	1,060,123	A→T	8.3%	N290Y (AAC→TAC) ‡	torA →	trimethylamine N‑oxide (TMAO) reductase I, catalytic subunit
RA	1,060,125	C→A	8.5%	N290K (AAC→AAA) ‡	torA →	trimethylamine N‑oxide (TMAO) reductase I, catalytic subunit
RA	1,071,654	G→A	7.0%	Q38* (CAG→TAG)	rutD ←	putative reactive intermediate detoxifying aminoacrylate hydrolase
RA	1,077,220	G→A	6.2%	R555C (CGT→TGT)	putA ←	fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase
RA	1,086,019	Δ1 bp	5.3%	coding (1028/1065 nt)	phoH →	ATP‑binding protein; putative PhoH family P‑loop ATPase
RA	1,086,025	T→A	5.3%	L345H (CTT→CAT) ‡	phoH →	ATP‑binding protein; putative PhoH family P‑loop ATPase
RA	1,086,026	T→G	5.3%	L345L (CTT→CTG) ‡	phoH →	ATP‑binding protein; putative PhoH family P‑loop ATPase
RA	1,086,030:1	+G	5.3%	coding (1039/1065 nt)	phoH →	ATP‑binding protein; putative PhoH family P‑loop ATPase
RA	1,100,789	G→T	8.7%	intergenic (+2/+62)	ycdZ → / ← csgG	DUF1097 family inner membrane protein/curli production assembly/transport outer membrane lipoprotein
RA	1,100,791	G→C	8.0%	intergenic (+4/+60)	ycdZ → / ← csgG	DUF1097 family inner membrane protein/curli production assembly/transport outer membrane lipoprotein
RA	1,100,793	A→C	8.2%	intergenic (+6/+58)	ycdZ → / ← csgG	DUF1097 family inner membrane protein/curli production assembly/transport outer membrane lipoprotein
RA	1,113,544	G→A	7.8%	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	7.6%	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	7.6%	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	1,122,132	T→A	6.3%	E159V (GAA→GTA)	pyrC ←	dihydro‑orotase
RA	1,131,199	G→C	5.1%	S61T (AGT→ACT) ‡	flgB →	flagellar component of cell‑proximal portion of basal‑body rod
RA	1,131,200	T→A	5.8%	S61R (AGT→AGA) ‡	flgB →	flagellar component of cell‑proximal portion of basal‑body rod
RA	1,131,201	G→C	5.1%	V62L (GTG→CTG)	flgB →	flagellar component of cell‑proximal portion of basal‑body rod
RA	1,145,946	T→A	5.7%	intergenic (+47/+65)	rluC → / ← yceF	23S rRNA pseudouridine(955,2504,2580) synthase/m(7)GTP pyrophosphatase
RA	1,145,947	T→A	8.4%	intergenic (+48/+64)	rluC → / ← yceF	23S rRNA pseudouridine(955,2504,2580) synthase/m(7)GTP pyrophosphatase
RA	1,145,953	G→T	5.5%	intergenic (+54/+58)	rluC → / ← yceF	23S rRNA pseudouridine(955,2504,2580) synthase/m(7)GTP pyrophosphatase
RA	1,145,954	C→T	6.9%	intergenic (+55/+57)	rluC → / ← yceF	23S rRNA pseudouridine(955,2504,2580) synthase/m(7)GTP pyrophosphatase
RA	1,147,980	G→T	9.8%	K120N (AAG→AAT)	plsX →	putative phosphate acyltransferase
RA	1,147,986	G→C	9.1%	L122L (CTG→CTC)	plsX →	putative phosphate acyltransferase
RA	1,147,987	G→C	9.1%	E123Q (GAG→CAG)	plsX →	putative phosphate acyltransferase
RA	1,147,993	A→C	9.6%	I125L (ATT→CTT)	plsX →	putative phosphate acyltransferase
JC	1,148,580	Δ9 bp	7.7%	coding (960‑968/1071 nt)	plsX →	putative phosphate acyltransferase
RA	1,149,102	T→G	77.8%	F115C (TTC→TGC)	fabH →	3‑oxoacyl‑[acyl‑carrier‑protein] synthase III
RA	1,151,873	T→A	6.8%	intergenic (+22/‑66)	acpP → / → fabF	acyl carrier protein (ACP)/3‑oxoacyl‑[acyl‑carrier‑protein] synthase II
RA	1,151,874	T→A	6.9%	intergenic (+23/‑65)	acpP → / → fabF	acyl carrier protein (ACP)/3‑oxoacyl‑[acyl‑carrier‑protein] synthase II
RA	1,153,208	T→C	5.8%	intergenic (+28/‑92)	fabF → / → pabC	3‑oxoacyl‑[acyl‑carrier‑protein] synthase II/4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex
RA	1,157,629	G→C	8.5%	intergenic (+55/‑240)	ycfH → / → ptsG	putative DNase/fused glucose‑specific PTS enzymes: IIB component/IIC component
RA	1,157,632	A→T	6.6%	intergenic (+58/‑237)	ycfH → / → ptsG	putative DNase/fused glucose‑specific PTS enzymes: IIB component/IIC component
RA	1,157,633	A→T	5.3%	intergenic (+59/‑236)	ycfH → / → ptsG	putative DNase/fused glucose‑specific PTS enzymes: IIB component/IIC component
RA	1,157,636	G→C	6.3%	intergenic (+62/‑233)	ycfH → / → ptsG	putative DNase/fused glucose‑specific PTS enzymes: IIB component/IIC component
RA	1,159,335	G→T	5.9%	intergenic (+33/+27)	ptsG → / ← fhuE	fused glucose‑specific PTS enzymes: IIB component/IIC component/ferric‑rhodotorulic acid outer membrane transporter
RA	1,159,336	A→C	5.9%	intergenic (+34/+26)	ptsG → / ← fhuE	fused glucose‑specific PTS enzymes: IIB component/IIC component/ferric‑rhodotorulic acid outer membrane transporter
RA	1,169,380	T→C	5.1%	intergenic (+50/+32)	bhsA → / ← ldtC	biofilm, cell surface and signaling protein/L,D‑transpeptidase linking Lpp to murein
RA	1,169,382	C→G	5.1%	intergenic (+52/+30)	bhsA → / ← ldtC	biofilm, cell surface and signaling protein/L,D‑transpeptidase linking Lpp to murein
RA	1,169,384	G→A	5.2%	intergenic (+54/+28)	bhsA → / ← ldtC	biofilm, cell surface and signaling protein/L,D‑transpeptidase linking Lpp to murein
RA	1,177,646	T→G	15.8%	N109K (AAT→AAG)	lolE →	lipoprotein‑releasing system transmembrane protein
RA	1,177,647	C→A	13.0%	L110I (CTT→ATT)	lolE →	lipoprotein‑releasing system transmembrane protein
RA	1,196,153	A→G	6.8%	K344R (AAA→AGA)	icd →	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA	1,196,220	C→T	80.0%	H366H (CAC→CAT)	icd →	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA	1,196,232	C→T	73.0%	T370T (ACC→ACT)	icd →	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA	1,196,245	T→C	71.9%	L375L (TTA→CTA) ‡	icd →	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA	1,196,247	A→G	71.9%	L375L (TTA→TTG) ‡	icd →	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA	1,196,277	C→T	40.0%	N385N (AAC→AAT)	icd →	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA	1,196,280	G→C	39.9%	A386A (GCG→GCC)	icd →	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA	1,196,283	A→G	36.0%	K387K (AAA→AAG)	icd →	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA	1,196,292	C→T	26.1%	T390T (ACC→ACT)	icd →	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA	1,211,610	A→G	6.3%	intergenic (+33/+70)	icdC → / ← iraM	pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion/RpoS stabilzer during Mg starvation, anti‑RssB factor
RA	1,211,612	A→T	7.2%	intergenic (+35/+68)	icdC → / ← iraM	pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion/RpoS stabilzer during Mg starvation, anti‑RssB factor
RA	1,211,614	C→T	6.4%	intergenic (+37/+66)	icdC → / ← iraM	pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion/RpoS stabilzer during Mg starvation, anti‑RssB factor
RA	1,224,994	G→A	6.0%	A123V (GCA→GTA)	minD ←	inhibitor of FtsZ ring polymerization; chromosome‑membrane tethering protein; membrane ATPase of the MinCDEE system
RA	1,237,608	T→C	5.9%	V13A (GTT→GCT)	dadA →	D‑amino acid dehydrogenase
RA	1,248,064	T→A	7.3%	K351* (AAA→TAA)	dhaM ←	putative dihydroxyacetone‑specific PTS enzymes: HPr, EI components
RA	1,285,190	T→A	7.4%	L18I (TTA→ATA)	narJ →	molybdenum‑cofactor‑assembly chaperone delta subunit of nitrate reductase 1
RA	1,292,472	G→A	6.6%	intergenic (+107/+37)	galU → / ← hns	glucose‑1‑phosphate uridylyltransferase/global DNA‑binding transcriptional dual regulator H‑NS
RA	1,292,473	C→G	7.3%	intergenic (+108/+36)	galU → / ← hns	glucose‑1‑phosphate uridylyltransferase/global DNA‑binding transcriptional dual regulator H‑NS
RA	1,292,474	T→C	7.2%	intergenic (+109/+35)	galU → / ← hns	glucose‑1‑phosphate uridylyltransferase/global DNA‑binding transcriptional dual regulator H‑NS
RA	1,299,403	T→C	5.7%	intergenic (+158/‑1779)	ychE → / → oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
RA	1,302,827	G→A	5.3%	intergenic (+14/‑72)	oppA → / → oppB	oligopeptide ABC transporter periplasmic binding protein/oligopeptide ABC transporter permease
RA	1,302,834	G→C	5.1%	intergenic (+21/‑65)	oppA → / → oppB	oligopeptide ABC transporter periplasmic binding protein/oligopeptide ABC transporter permease
RA	1,302,836	G→C	5.9%	intergenic (+23/‑63)	oppA → / → oppB	oligopeptide ABC transporter periplasmic binding protein/oligopeptide ABC transporter permease
RA	1,306,787	G→A	13.0%	intergenic (+19/+34)	oppF → / ← yciU	oligopeptide ABC transporter ATPase/UPF0263 family protein
RA	1,306,788	T→C	13.0%	intergenic (+20/+33)	oppF → / ← yciU	oligopeptide ABC transporter ATPase/UPF0263 family protein
RA	1,311,830	A→G	11.3%	intergenic (+22/+18)	tonB → / ← yciA	membrane spanning protein in TonB‑ExbB‑ExbD transport complex/acyl‑CoA esterase
RA	1,326,786	G→C	7.2%	intergenic (+145/‑66)	yciQ → / → rluB	enhancer of membrane protein expression; putative inner membrane protein/23S rRNA pseudouridine(2605) synthase
RA	1,344,033	A→G	7.3%	L105P (CTG→CCG)	yciT ←	global regulator of transcription; DeoR family
RA	1,344,036	G→C	7.2%	T104S (ACT→AGT)	yciT ←	global regulator of transcription; DeoR family
RA	1,344,039	C→T	7.0%	R103Q (CGG→CAG)	yciT ←	global regulator of transcription; DeoR family
RA	1,351,222	T→G	12.5%	intergenic (‑183/+185)	fabI ← / ← ycjD	enoyl‑[acyl‑carrier‑protein] reductase, NADH‑dependent/DUF559 family endonuclease‑related protein
RA	1,351,228	G→C	17.0%	intergenic (‑189/+179)	fabI ← / ← ycjD	enoyl‑[acyl‑carrier‑protein] reductase, NADH‑dependent/DUF559 family endonuclease‑related protein
RA	1,356,469	G→A	7.1%	G214G (GGC→GGT)	sapA ←	antimicrobial peptide transport ABC transporter periplasmic binding protein
RA	1,376,207	C→A	5.7%	A58A (GCC→GCA)	ycjR →	putative TIM alpha/beta barrel enzyme
RA	1,376,208	T→G	5.5%	C59G (TGC→GGC)	ycjR →	putative TIM alpha/beta barrel enzyme
RA	1,381,915	G→T	7.9%	intergenic (+13/‑32)	ycjV → / → ompG	pseudogene; putative ATP‑binding component of a transport system/outer membrane porin G
RA	1,381,918	A→C	6.8%	intergenic (+16/‑29)	ycjV → / → ompG	pseudogene; putative ATP‑binding component of a transport system/outer membrane porin G
RA	1,388,285	A→G	5.2%	intergenic (+24/+20)	tyrR → / ← tpx	aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase
RA	1,410,957	T→G	6.1%	intergenic (+73/+56)	dbpA → / ← ttcA	ATP‑dependent RNA helicase, specific for 23S rRNA/tRNA s(2)C32 thioltransferase, iron sulfur cluster protein
RA	1,413,029	G→C	6.8%	S69R (AGC→AGG) ‡	intR ←	Rac prophage; integrase
RA	1,413,031	T→A	6.9%	S69C (AGC→TGC) ‡	intR ←	Rac prophage; integrase
RA	1,413,033	G→C	7.1%	S68C (TCC→TGC)	intR ←	Rac prophage; integrase
RA	1,414,844	C→T	5.5%	W848* (TGG→TAG)	recE ←	Rac prophage; exonuclease VIII, 5' to 3' specific dsDNA exonuclease
RA	1,446,357:1	+T	7.2%	intergenic (+151/+21)	ydbL → / ← feaR	DUF1318 family protein/transcriptional activator for tynA and feaB
RA	1,446,362	Δ1 bp	7.1%	intergenic (+156/+16)	ydbL → / ← feaR	DUF1318 family protein/transcriptional activator for tynA and feaB
RA	1,446,786	T→A	5.4%	E166D (GAA→GAT)	feaR ←	transcriptional activator for tynA and feaB
RA	1,457,976	A→T	5.7%	G160G (GGA→GGT)	paaF →	2,3‑dehydroadipyl‑CoA hydratase
RA	1,457,979	A→T	6.2%	E161D (GAA→GAT)	paaF →	2,3‑dehydroadipyl‑CoA hydratase
RA	1,457,981	G→C	6.1%	S162T (AGT→ACT)	paaF →	2,3‑dehydroadipyl‑CoA hydratase
RA	1,457,983	A→T	6.2%	I163F (ATC→TTC)	paaF →	2,3‑dehydroadipyl‑CoA hydratase
RA	1,457,986	A→T	6.3%	T164S (ACC→TCC)	paaF →	2,3‑dehydroadipyl‑CoA hydratase
RA	1,466,504	A→G	11.1%	pseudogene (1113/2513 nt)	ydbA →	pseudogene, autotransporter homolog; interrupted by IS2 and IS30
RA	1,482,222	A→T	6.6%	intergenic (+21/+33)	ynbD → / ← azoR	putative phosphatase inner membrane protein/NADH‑azoreductase, FMN‑dependent
RA	1,482,224	T→G	6.1%	intergenic (+23/+31)	ynbD → / ← azoR	putative phosphatase inner membrane protein/NADH‑azoreductase, FMN‑dependent
RA	1,482,227	C→A	7.3%	intergenic (+26/+28)	ynbD → / ← azoR	putative phosphatase inner membrane protein/NADH‑azoreductase, FMN‑dependent
RA	1,482,229	A→T	6.9%	intergenic (+28/+26)	ynbD → / ← azoR	putative phosphatase inner membrane protein/NADH‑azoreductase, FMN‑dependent
RA	1,492,476	A→G	5.3%	T3A (ACA→GCA)	trg →	methyl‑accepting chemotaxis protein III, ribose and galactose sensor receptor
RA	1,520,080	G→T	7.7%	intergenic (+16/‑182)	curA → / → mcbR	curcumin/dihydrocurcumin reductase, NADPH‑dependent/colanic acid and biofilm gene transcriptional regulator, MqsR‑controlled
RA	1,520,083	A→C	6.5%	intergenic (+19/‑179)	curA → / → mcbR	curcumin/dihydrocurcumin reductase, NADPH‑dependent/colanic acid and biofilm gene transcriptional regulator, MqsR‑controlled
RA	1,520,941	C→T	5.1%	intergenic (+14/+22)	mcbR → / ← yncD	colanic acid and biofilm gene transcriptional regulator, MqsR‑controlled/putative iron outer membrane transporter
RA	1,520,944	A→T	5.1%	intergenic (+17/+19)	mcbR → / ← yncD	colanic acid and biofilm gene transcriptional regulator, MqsR‑controlled/putative iron outer membrane transporter
RA	1,520,946	A→G	5.0%	intergenic (+19/+17)	mcbR → / ← yncD	colanic acid and biofilm gene transcriptional regulator, MqsR‑controlled/putative iron outer membrane transporter
RA	1,524,458:1	+T	7.2%	intergenic (+90/+23)	yncE → / ← ansP	ATP‑binding protein, periplasmic, function unknown/L‑asparagine transporter
RA	1,524,463	Δ1 bp	7.1%	intergenic (+95/+18)	yncE → / ← ansP	ATP‑binding protein, periplasmic, function unknown/L‑asparagine transporter
RA	1,530,496	G→T	13.1%	intergenic (+92/‑90)	ydcD → / → yncI	putative immunity protein for RhsE/pseudogene
RA	1,530,499	A→C	8.1%	intergenic (+95/‑87)	ydcD → / → yncI	putative immunity protein for RhsE/pseudogene
RA	1,530,505	G→A	8.9%	intergenic (+101/‑81)	ydcD → / → yncI	putative immunity protein for RhsE/pseudogene
RA	1,552,086	A→C	7.5%	intergenic (+95/+312)	fdnI → / ← yddM	formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator
RA	1,557,343	C→T	5.4%	T232T (ACG→ACA) ‡	ddpF ←	D,D‑dipeptide ABC transporter ATPase
RA	1,557,345	T→A	5.4%	T232S (ACG→TCG) ‡	ddpF ←	D,D‑dipeptide ABC transporter ATPase
RA	1,557,347	A→G	5.2%	L231P (CTG→CCG)	ddpF ←	D,D‑dipeptide ABC transporter ATPase
RA	1,567,466	G→C	5.3%	intergenic (‑326/+38)	dosC ← / ← yddW	diguanylate cyclase, cold‑ and stationary phase‑induced oxygen‑dependent biofilm regulator/liprotein, glycosyl hydrolase homolog
RA	1,567,471	A→C	5.2%	intergenic (‑331/+33)	dosC ← / ← yddW	diguanylate cyclase, cold‑ and stationary phase‑induced oxygen‑dependent biofilm regulator/liprotein, glycosyl hydrolase homolog
RA	1,567,472	G→C	5.2%	intergenic (‑332/+32)	dosC ← / ← yddW	diguanylate cyclase, cold‑ and stationary phase‑induced oxygen‑dependent biofilm regulator/liprotein, glycosyl hydrolase homolog
RA	1,568,915	G→A	10.5%	intergenic (‑92/+39)	yddW ← / ← gadC	liprotein, glycosyl hydrolase homolog/glutamate:gamma‑aminobutyric acid antiporter
RA	1,568,917	A→T	10.3%	intergenic (‑94/+37)	yddW ← / ← gadC	liprotein, glycosyl hydrolase homolog/glutamate:gamma‑aminobutyric acid antiporter
RA	1,568,919	T→C	10.6%	intergenic (‑96/+35)	yddW ← / ← gadC	liprotein, glycosyl hydrolase homolog/glutamate:gamma‑aminobutyric acid antiporter
RA	1,579,563	G→T	6.9%	intergenic (‑221/+70)	yddA ← / ← ydeM	putative multidrug ABC transporter permease/ATPase/putative YdeN‑specific sulfatase‑maturating enzyme
RA	1,579,564	G→A	7.0%	intergenic (‑222/+69)	yddA ← / ← ydeM	putative multidrug ABC transporter permease/ATPase/putative YdeN‑specific sulfatase‑maturating enzyme
RA	1,579,569	T→C	7.0%	intergenic (‑227/+64)	yddA ← / ← ydeM	putative multidrug ABC transporter permease/ATPase/putative YdeN‑specific sulfatase‑maturating enzyme
RA	1,579,570	A→C	7.9%	intergenic (‑228/+63)	yddA ← / ← ydeM	putative multidrug ABC transporter permease/ATPase/putative YdeN‑specific sulfatase‑maturating enzyme
RA	1,587,669	A→G	6.9%	V22V (GTT→GTC) ‡	ydeQ ←	putative fimbrial‑like adhesin protein
RA	1,587,670	A→T	7.0%	V22D (GTT→GAT) ‡	ydeQ ←	putative fimbrial‑like adhesin protein
RA	1,587,671	C→T	6.7%	V22I (GTT→ATT) ‡	ydeQ ←	putative fimbrial‑like adhesin protein
RA	1,596,499	C→A	7.8%	pseudogene (1489/3861 nt)	yneO ←	pseudogene, AidA homolog
RA	1,596,501	T→A	8.4%	pseudogene (1487/3861 nt)	yneO ←	pseudogene, AidA homolog
RA	1,596,503	T→G	7.8%	pseudogene (1485/3861 nt)	yneO ←	pseudogene, AidA homolog
RA	1,596,510	A→G	6.0%	pseudogene (1478/3861 nt)	yneO ←	pseudogene, AidA homolog
RA	1,597,239	T→A	6.2%	pseudogene (749/3861 nt)	yneO ←	pseudogene, AidA homolog
RA	1,609,555	Δ1 bp	6.8%	coding (1126/1452 nt)	uxaB ←	altronate oxidoreductase, NAD‑dependent
RA	1,609,561:1	+C	6.3%	coding (1120/1452 nt)	uxaB ←	altronate oxidoreductase, NAD‑dependent
RA	1,660,438	A→G	5.4%	S790S (TCA→TCG)	ynfE →	putative selenate reductase, periplasmic
RA	1,660,442	C→G	5.3%	L792V (CTG→GTG)	ynfE →	putative selenate reductase, periplasmic
RA	1,660,446	C→T	5.1%	A793V (GCG→GTG)	ynfE →	putative selenate reductase, periplasmic
RA	1,661,935	G→T	8.3%	L460L (CTG→CTT)	ynfF →	S‑ and N‑oxide reductase, A subunit, periplasmic
RA	1,661,940	T→G	8.9%	V462G (GTC→GGC) ‡	ynfF →	S‑ and N‑oxide reductase, A subunit, periplasmic
RA	1,661,941	C→G	8.7%	V462V (GTC→GTG) ‡	ynfF →	S‑ and N‑oxide reductase, A subunit, periplasmic
RA	1,661,942	C→G	9.0%	P463A (CCC→GCC) ‡	ynfF →	S‑ and N‑oxide reductase, A subunit, periplasmic
RA	1,661,943	C→A	9.9%	P463H (CCC→CAC) ‡	ynfF →	S‑ and N‑oxide reductase, A subunit, periplasmic
RA	1,661,948	A→C	8.6%	K465Q (AAG→CAG)	ynfF →	S‑ and N‑oxide reductase, A subunit, periplasmic
RA	1,666,468	A→T	10.4%	Q385L (CAG→CTG)	clcB →	H(+)/Cl(‑) exchange transporter
RA	1,698,587	T→A	8.1%	A198A (GCA→GCT)	malI ←	transcriptional repressor of Mal regulon
RA	1,708,468	A→T	5.7%	E517V (GAA→GTA) ‡	rsxC →	SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
RA	1,708,469	A→T	6.4%	E517D (GAA→GAT) ‡	rsxC →	SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
RA	1,708,758	G→C	23.6%	E614Q (GAA→CAA)	rsxC →	SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
RA	1,718,588	A→T	12.3%	W339R (TGG→AGG)	anmK ←	anhydro‑N‑acetylmuramic acid kinase
RA	1,745,861	T→A	8.4%	A89A (GCA→GCT)	ydhQ ←	autotransporter adhesin‑related protein
RA	1,746,144	G→T	78.2%	intergenic (‑17/‑291)	ydhQ ← / → valV	autotransporter adhesin‑related protein/tRNA‑Val
RA	1,746,145	C→A	78.3%	intergenic (‑18/‑290)	ydhQ ← / → valV	autotransporter adhesin‑related protein/tRNA‑Val
RA	1,746,751	G→A	5.3%	A18T (GCA→ACA)	ydhR →	putative monooxygenase
RA	1,752,833	C→A	6.1%	G333V (GGT→GTT)	ydhV ←	putative oxidoreductase subunit
RA	1,754,524	C→A	73.3%	intergenic (‑47/+408)	ydhY ← / ← ydhZ	putative 4Fe‑4S ferridoxin‑type protein; FNR, Nar, NarP‑regulated protein; putative subunit of YdhYVWXUT oxidoreductase complex/uncharacterized protein
RA	1,756,609	C→A	71.7%	D304E (GAC→GAA)	pykF →	pyruvate kinase I
RA	1,764,695	A→G	5.3%	intergenic (‑309/+18)	sufA ← / ← rydB	Fe‑S cluster assembly protein/novel sRNA, function unknown
RA	1,764,701	G→A	6.2%	intergenic (‑315/+12)	sufA ← / ← rydB	Fe‑S cluster assembly protein/novel sRNA, function unknown
RA	1,770,203	T→A	8.0%	intergenic (+17/‑169)	ydiK → / → rprA	UPF0118 family inner membrane protein/sRNA antisense activator for RpoS translation, Hfq‑dependent
RA	1,770,204	C→G	8.2%	intergenic (+18/‑168)	ydiK → / → rprA	UPF0118 family inner membrane protein/sRNA antisense activator for RpoS translation, Hfq‑dependent
RA	1,770,205	T→A	9.0%	intergenic (+19/‑167)	ydiK → / → rprA	UPF0118 family inner membrane protein/sRNA antisense activator for RpoS translation, Hfq‑dependent
RA	1,789,497	T→G	9.9%	intergenic (+16/‑116)	aroH → / → ydiE	3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, tryptophan repressible/hemin uptake protein HemP homolog
RA	1,789,498	G→T	8.0%	intergenic (+17/‑115)	aroH → / → ydiE	3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, tryptophan repressible/hemin uptake protein HemP homolog
RA	1,789,499	A→C	7.1%	intergenic (+18/‑114)	aroH → / → ydiE	3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, tryptophan repressible/hemin uptake protein HemP homolog
RA	1,789,500	C→A	7.9%	intergenic (+19/‑113)	aroH → / → ydiE	3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, tryptophan repressible/hemin uptake protein HemP homolog
RA	1,807,316	G→A	6.2%	intergenic (+17/‑84)	pfkB → / → ydiZ	6‑phosphofructokinase II/uncharacterized protein
RA	1,807,317	C→T	6.2%	intergenic (+18/‑83)	pfkB → / → ydiZ	6‑phosphofructokinase II/uncharacterized protein
RA	1,807,318	A→G	6.2%	intergenic (+19/‑82)	pfkB → / → ydiZ	6‑phosphofructokinase II/uncharacterized protein
RA	1,807,319	T→C	6.2%	intergenic (+20/‑81)	pfkB → / → ydiZ	6‑phosphofructokinase II/uncharacterized protein
RA	1,808,680	T→A	5.1%	intergenic (+24/+17)	yniA → / ← yniB	fructosamine kinase family protein/putative inner membrane protein
RA	1,808,682	C→G	5.3%	intergenic (+26/+15)	yniA → / ← yniB	fructosamine kinase family protein/putative inner membrane protein
RA	1,808,684	T→A	5.7%	intergenic (+28/+13)	yniA → / ← yniB	fructosamine kinase family protein/putative inner membrane protein
RA	1,814,742	C→G	6.5%	H292Q (CAC→CAG)	katE →	catalase HPII, heme d‑containing
RA	1,830,061	G→T	7.5%	A235A (GCC→GCA)	astA ←	arginine succinyltransferase
RA	1,861,419	A→G	9.2%	intergenic (‑87/+283)	ydjL ← / ← yeaC	putative Zn‑dependent NAD(P)‑binding oxidoreductase/DUF1315 family protein
RA	1,861,425	A→C	8.6%	intergenic (‑93/+277)	ydjL ← / ← yeaC	putative Zn‑dependent NAD(P)‑binding oxidoreductase/DUF1315 family protein
RA	1,861,428	G→T	8.7%	intergenic (‑96/+274)	ydjL ← / ← yeaC	putative Zn‑dependent NAD(P)‑binding oxidoreductase/DUF1315 family protein
RA	1,861,434	C→T	8.5%	intergenic (‑102/+268)	ydjL ← / ← yeaC	putative Zn‑dependent NAD(P)‑binding oxidoreductase/DUF1315 family protein
RA	1,862,165	G→A	5.2%	Q89* (CAG→TAG)	msrB ←	methionine sulfoxide reductase B
RA	1,865,682	G→C	9.3%	intergenic (‑46/+44)	yeaE ← / ← mipA	aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent/scaffolding protein for murein synthesizing machinery
RA	1,885,805	T→A	8.8%	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	7.3%	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	7.2%	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	7.5%	intergenic (+21/‑35)	yeaW → / → yeaX	putative YeaWX dioxygenase alpha subunit; 2Fe‑2S cluster/putative YeaWX dioxygenase beta subunit, reductase component
RA	1,902,455	A→C	18.5%	K136N (AAA→AAC)	manX →	fused mannose‑specific PTS enzymes: IIA component/IIB component
RA	1,904,592	C→A	7.5%	T233N (ACT→AAT)	manZ →	mannose‑specific enzyme IID component of PTS
RA	1,904,595	T→G	7.3%	I234S (ATT→AGT)	manZ →	mannose‑specific enzyme IID component of PTS
RA	1,910,295	A→T	5.2%	D7V (GAC→GTC)	yebQ →	putative transporter
RA	1,928,828	T→G	11.6%	K4N (AAA→AAC)	ptrB ←	protease II
RA	1,943,623	T→G	13.8%	G70G (GGT→GGG)	znuB →	zinc ABC transporter permease
RA	1,946,035	G→T	7.3%	intergenic (‑59/+80)	ruvA ← / ← yobI	component of RuvABC resolvasome, regulatory subunit/uncharacterized protein
RA	1,972,072	A→G	5.4%	V207A (GTG→GCG)	tar ←	methyl‑accepting chemotaxis protein II
RA	1,977,227	T→A	5.0%	intergenic (‑88/+39)	motA ← / ← flhC	proton conductor component of flagella motor/flagellar class II regulon transcriptional activator, with FlhD
RA	1,977,230	Δ1 bp	5.1%	intergenic (‑91/+36)	motA ← / ← flhC	proton conductor component of flagella motor/flagellar class II regulon transcriptional activator, with FlhD
MC JC	1,978,503	Δ776 bp	100%		insB1–insA	insB1, insA
RA	1,980,103:1	+C	5.0%	coding (351/429 nt)	uspC →	universal stress protein
RA	1,980,110	T→G	5.9%	S120A (TCC→GCC) ‡	uspC →	universal stress protein
RA	1,980,111	C→G	5.2%	S120C (TCC→TGC) ‡	uspC →	universal stress protein
RA	1,980,118	Δ1 bp	5.2%	coding (366/429 nt)	uspC →	universal stress protein
RA	1,986,176	A→T	6.3%	intergenic (‑48/‑749)	araF ← / → ftnB	L‑arabinose ABC transporter periplasmic binding protein/ferritin B, putative ferrous iron reservoir
RA	1,987,450:1	+A	6.4%	intergenic (+22/+57)	ftnB → / ← yecJ	ferritin B, putative ferrous iron reservoir/DUF2766 family protein
RA	1,992,022	G→C	5.3%	intergenic (‑35/+20)	cysT ← / ← glyW	tRNA‑Cys/tRNA‑Gly
RA	2,019,460	G→A	100%	V359I (GTC→ATC)	fliK →	flagellar hook‑length control protein
RA	2,024,609	T→G	6.7%	intergenic (+18/+26)	rcsA → / ← dsrB	transcriptional regulator of colanic acid capsular biosynthesis/uncharacterized protein
RA	2,028,158	G→C	16.5%	intergenic (‑141/+30)	yedQ ← / ← yodC	putative membrane‑anchored diguanylate cyclase/uncharacterized protein
RA	2,028,159	T→A	16.1%	intergenic (‑142/+29)	yedQ ← / ← yodC	putative membrane‑anchored diguanylate cyclase/uncharacterized protein
RA	2,028,160	G→C	16.4%	intergenic (‑143/+28)	yedQ ← / ← yodC	putative membrane‑anchored diguanylate cyclase/uncharacterized protein
RA	2,041,173	C→A	5.1%	intergenic (+55/‑202)	yedZ → / → zinT	inner membrane heme subunit for periplasmic YedYZ reductase/zinc and cadmium binding protein, periplasmic
RA	2,059,946	T→A	5.0%	intergenic (+20/+18)	asnU → / ← cbl	tRNA‑Asn/ssuEADCB/tauABCD operon transcriptional activator
RA	2,059,948	T→A	5.1%	intergenic (+22/+16)	asnU → / ← cbl	tRNA‑Asn/ssuEADCB/tauABCD operon transcriptional activator
RA	2,062,354	T→A	6.5%	intergenic (+19/+37)	asnV → / ← ldtA	tRNA‑Asn/L,D‑transpeptidase linking Lpp to murein
RA	2,062,355	T→G	7.0%	intergenic (+20/+36)	asnV → / ← ldtA	tRNA‑Asn/L,D‑transpeptidase linking Lpp to murein
RA	2,062,356	C→A	6.7%	intergenic (+21/+35)	asnV → / ← ldtA	tRNA‑Asn/L,D‑transpeptidase linking Lpp to murein
RA	2,062,357	T→A	6.8%	intergenic (+22/+34)	asnV → / ← ldtA	tRNA‑Asn/L,D‑transpeptidase linking Lpp to murein
RA	2,063,179	G→A	6.4%	P49S (CCG→TCG)	ldtA ←	L,D‑transpeptidase linking Lpp to murein
RA	2,072,346	G→C	5.9%	V270L (GTG→CTG) ‡	flu →	CP4‑44 prophage; antigen 43 (Ag43) phase‑variable biofilm formation autotransporter
RA	2,072,348	G→C	9.8%	V270V (GTG→GTC) ‡	flu →	CP4‑44 prophage; antigen 43 (Ag43) phase‑variable biofilm formation autotransporter
RA	2,079,004	G→C	7.6%	intergenic (+73/+28)	yoeF → / ← yeeX	pseudogene, CP4‑44 putative prophage remnant;Phage or Prophage Related/UPF0265 family protein
RA	2,079,329	T→G	6.8%	V11V (GTA→GTC)	yeeX ←	UPF0265 family protein
RA	2,079,334	C→A	6.4%	D10Y (GAC→TAC)	yeeX ←	UPF0265 family protein
RA	2,081,688	A→T	9.1%	I287N (ATT→AAT)	dacD ←	D‑alanyl‑D‑alanine carboxypeptidase; penicillin‑binding protein 6b
RA	2,099,257	A→T	5.7%	V119V (GTT→GTA) ‡	ugd ←	UDP‑glucose 6‑dehydrogenase
RA	2,099,258	A→C	5.7%	V119G (GTT→GGT) ‡	ugd ←	UDP‑glucose 6‑dehydrogenase
RA	2,103,769	G→A	5.3%	I247I (ATC→ATT)	wbbK ←	lipopolysaccharide biosynthesis protein
RA	2,139,589	G→T	9.7%	intergenic (+104/+170)	yegH → / ← asmA	inner membrane protein/suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein
RA	2,139,709	G→A	5.3%	intergenic (+224/+50)	yegH → / ← asmA	inner membrane protein/suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein
RA	2,139,710	C→A	5.3%	intergenic (+225/+49)	yegH → / ← asmA	inner membrane protein/suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein
RA	2,139,716	T→G	6.8%	intergenic (+231/+43)	yegH → / ← asmA	inner membrane protein/suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein
RA	2,139,718	T→A	5.3%	intergenic (+233/+41)	yegH → / ← asmA	inner membrane protein/suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein
RA	2,139,720	C→A	5.9%	intergenic (+235/+39)	yegH → / ← asmA	inner membrane protein/suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein
RA	2,140,400	G→A	7.5%	R405W (CGG→TGG)	asmA ←	suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein
RA	2,140,401	T→C	7.4%	P404P (CCA→CCG)	asmA ←	suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein
RA	2,142,505	G→C	9.9%	R148R (CGC→CGG)	udk ←	uridine/cytidine kinase
RA	2,169,657	G→A	6.6%	intergenic (+46/+36)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,169,658	C→A	7.2%	intergenic (+47/+35)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,169,664	A→T	7.6%	intergenic (+53/+29)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,169,665	A→T	7.6%	intergenic (+54/+28)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,169,671	T→G	7.5%	intergenic (+60/+22)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,169,672	T→C	7.9%	intergenic (+61/+21)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,173,361	Δ2 bp	100%	pseudogene (1‑2/442 nt)	gatC ←	pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC
RA	2,177,234	C→A	26.0%	intergenic (‑30/+278)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,177,245	G→T	34.2%	intergenic (‑41/+267)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,177,332	C→T	7.2%	intergenic (‑128/+180)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,177,337	G→T	7.1%	intergenic (‑133/+175)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,177,340	A→C	7.2%	intergenic (‑136/+172)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,177,345	A→G	7.4%	intergenic (‑141/+167)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,177,427	T→G	5.9%	intergenic (‑223/+85)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,177,428	C→A	5.7%	intergenic (‑224/+84)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,193,007	C→A	5.1%	intergenic (‑211/+52)	yehE ← / ← mrp	DUF2574 family protein/antiporter inner membrane protein
RA	2,193,019	T→G	5.0%	intergenic (‑223/+40)	yehE ← / ← mrp	DUF2574 family protein/antiporter inner membrane protein
RA	2,193,020	C→A	5.5%	intergenic (‑224/+39)	yehE ← / ← mrp	DUF2574 family protein/antiporter inner membrane protein
RA	2,193,624	G→C	5.2%	S182* (TCA→TGA)	mrp ←	antiporter inner membrane protein
RA	2,227,289	C→T	5.9%	intergenic (‑19/+34)	yohF ← / ← mdtQ	putative oxidoreductase/pseudogene; putative channel/filament proteins
RA	2,227,291	G→T	5.9%	intergenic (‑21/+32)	yohF ← / ← mdtQ	putative oxidoreductase/pseudogene; putative channel/filament proteins
RA	2,227,293	A→T	6.0%	intergenic (‑23/+30)	yohF ← / ← mdtQ	putative oxidoreductase/pseudogene; putative channel/filament proteins
RA	2,227,295	A→C	6.2%	intergenic (‑25/+28)	yohF ← / ← mdtQ	putative oxidoreductase/pseudogene; putative channel/filament proteins
RA	2,227,297	A→G	6.2%	intergenic (‑27/+26)	yohF ← / ← mdtQ	putative oxidoreductase/pseudogene; putative channel/filament proteins
RA	2,230,687	C→A	6.0%	L22M (CTG→ATG)	yohJ →	UPF0299 family inner membrane protein
RA	2,270,602	T→C	8.5%	intergenic (+57/‑124)	mepS → / → rtn	murein DD‑endopeptidase, space‑maker hydrolase, mutational suppressor of prc thermosensitivity, outer membrane lipoprotein, weak murein LD‑carboxypeptidase/resistance protein for phages lambda and N4, putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase
RA	2,270,605	G→A	8.5%	intergenic (+60/‑121)	mepS → / → rtn	murein DD‑endopeptidase, space‑maker hydrolase, mutational suppressor of prc thermosensitivity, outer membrane lipoprotein, weak murein LD‑carboxypeptidase/resistance protein for phages lambda and N4, putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase
RA	2,282,830	T→C	6.1%	intergenic (+29/+110)	rplY → / ← yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
RA	2,282,831	C→G	5.9%	intergenic (+30/+109)	rplY → / ← yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
RA	2,282,832	C→G	6.0%	intergenic (+31/+108)	rplY → / ← yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
RA	2,282,833	G→A	6.2%	intergenic (+32/+107)	rplY → / ← yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
RA	2,282,899	A→C	5.1%	intergenic (+98/+41)	rplY → / ← yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
RA	2,282,905	T→G	5.4%	intergenic (+104/+35)	rplY → / ← yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
RA	2,282,906	C→A	5.3%	intergenic (+105/+34)	rplY → / ← yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
RA	2,307,515	C→G	5.5%	M367I (ATG→ATC)	yojI ←	microcin J25 efflux ABC transporter permease/ATPase
RA	2,311,616	C→T	5.7%	intergenic (‑82/+30)	apbE ← / ← ompC	putative thiamine‑synthetic flavin transferase lipoprotein/outer membrane porin protein C
RA	2,311,619	A→G	5.8%	intergenic (‑85/+27)	apbE ← / ← ompC	putative thiamine‑synthetic flavin transferase lipoprotein/outer membrane porin protein C
RA	2,313,153	G→A	7.7%	noncoding (70/93 nt)	micF →	sRNA antisense regulator affecting ompF expression, Hfq‑dependent
RA	2,313,158	C→G	8.2%	noncoding (75/93 nt)	micF →	sRNA antisense regulator affecting ompF expression, Hfq‑dependent
RA	2,313,159	T→A	7.9%	noncoding (76/93 nt)	micF →	sRNA antisense regulator affecting ompF expression, Hfq‑dependent
RA	2,313,160	C→G	7.7%	noncoding (77/93 nt)	micF →	sRNA antisense regulator affecting ompF expression, Hfq‑dependent
RA	2,313,165	T→C	7.8%	noncoding (82/93 nt)	micF →	sRNA antisense regulator affecting ompF expression, Hfq‑dependent
RA	2,314,800	A→C	7.2%	Q438P (CAG→CCG) ‡	rcsD →	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
RA	2,314,801	G→T	6.7%	Q438H (CAG→CAT) ‡	rcsD →	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
RA	2,319,581	A→G	7.1%	V99A (GTG→GCG) ‡	rcsC ←	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN
RA	2,319,582	C→G	7.0%	V99L (GTG→CTG) ‡	rcsC ←	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN
RA	2,319,585	C→G	7.1%	D98H (GAT→CAT)	rcsC ←	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN
RA	2,319,586	C→T	7.1%	A97A (GCG→GCA)	rcsC ←	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN
RA	2,331,859	A→T	5.5%	pseudogene (2544/4605 nt)	yfaS ←	pseudogene, bacterial alpha2‑macroglobulin YfaS variant family; putative membrane protein
RA	2,367,781	T→C	5.2%	S237S (AGT→AGC)	arnC →	undecaprenyl phosphate‑L‑Ara4FN transferase
RA	2,369,486	T→A	7.7%	L483* (TTA→TAA)	arnA →	fused UDP‑L‑Ara4N formyltransferase/UDP‑GlcA C‑4'‑decarboxylase
RA	2,373,177	G→A	8.5%	G96S (GGC→AGC)	arnF →	undecaprenyl phosphate‑alpha‑L‑ara4N exporter; flippase ArnEF subunit
RA	2,373,180	T→C	9.8%	W97R (TGG→CGG)	arnF →	undecaprenyl phosphate‑alpha‑L‑ara4N exporter; flippase ArnEF subunit
RA	2,375,483	A→T	5.3%	L160L (CTT→CTA) ‡	menC ←	O‑succinylbenzoyl‑CoA synthase
RA	2,375,484	A→T	5.3%	L160H (CTT→CAT) ‡	menC ←	O‑succinylbenzoyl‑CoA synthase
RA	2,383,956	A→T	11.8%	intergenic (+32/+39)	elaD → / ← yfbK	protease, capable of cleaving an AMC‑ubiquitin model substrate/Von Willebrand factor domain putative lipoprotein
RA	2,383,959	A→T	11.6%	intergenic (+35/+36)	elaD → / ← yfbK	protease, capable of cleaving an AMC‑ubiquitin model substrate/Von Willebrand factor domain putative lipoprotein
RA	2,385,075	A→C	5.9%	N216K (AAT→AAG)	yfbK ←	Von Willebrand factor domain putative lipoprotein
RA	2,385,078	A→C	5.9%	S215S (TCT→TCG) ‡	yfbK ←	Von Willebrand factor domain putative lipoprotein
RA	2,385,079	G→T	6.0%	S215Y (TCT→TAT) ‡	yfbK ←	Von Willebrand factor domain putative lipoprotein
RA	2,385,082	G→T	6.2%	A214D (GCT→GAT)	yfbK ←	Von Willebrand factor domain putative lipoprotein
RA	2,390,012	Δ1 bp	10.2%	intergenic (+48/+36)	yfbP → / ← nuoN	TPR‑like repeats‑containing protein/NADH:ubiquinone oxidoreductase, membrane subunit N
RA	2,390,016:1	+C	10.1%	intergenic (+52/+32)	yfbP → / ← nuoN	TPR‑like repeats‑containing protein/NADH:ubiquinone oxidoreductase, membrane subunit N
RA	2,407,898	A→C	8.6%	Q113P (CAG→CCG) ‡	alaA →	glutamate‑pyruvate aminotransferase; glutamic‑pyruvic transaminase (GPT); alanine transaminase
RA	2,407,899	G→T	8.6%	Q113H (CAG→CAT) ‡	alaA →	glutamate‑pyruvate aminotransferase; glutamic‑pyruvic transaminase (GPT); alanine transaminase
RA	2,414,689	C→G	11.0%	intergenic (+17/‑58)	ackA → / → pta	acetate kinase A and propionate kinase 2/phosphate acetyltransferase
RA	2,416,941	A→G	5.3%	intergenic (+50/‑140)	pta → / → yfcC	phosphate acetyltransferase/putative inner membrane transporter; C4‑dicarboxylate anaerobic carrier family protein
RA	2,416,943	C→G	5.3%	intergenic (+52/‑138)	pta → / → yfcC	phosphate acetyltransferase/putative inner membrane transporter; C4‑dicarboxylate anaerobic carrier family protein
RA	2,416,945	C→T	5.5%	intergenic (+54/‑136)	pta → / → yfcC	phosphate acetyltransferase/putative inner membrane transporter; C4‑dicarboxylate anaerobic carrier family protein
RA	2,419,395	C→G	6.4%	V132L (GTG→CTG)	yfcE ←	phosphodiesterase activity on bis‑pNPP
RA	2,425,968	T→G	8.5%	intergenic (‑52/+38)	hisQ ← / ← hisJ	histidine ABC transporter permease/histidine ABC transporter periplasmic binding protein
RA	2,425,971	C→A	7.3%	intergenic (‑55/+35)	hisQ ← / ← hisJ	histidine ABC transporter permease/histidine ABC transporter periplasmic binding protein
RA	2,428,040	A→T	7.7%	intergenic (‑249/+17)	argT ← / ← ubiX	lysine/arginine/ornithine transporter subunit/3‑octaprenyl‑4‑hydroxybenzoate carboxy‑lyase
RA	2,432,985	A→G	10.3%	intergenic (‑43/+27)	folC ← / ← accD	bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit
RA	2,432,990	G→C	10.9%	intergenic (‑48/+22)	folC ← / ← accD	bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit
RA	2,448,064	G→A	6.2%	A126V (GCC→GTC)	prmB ←	N5‑glutamine methyltransferase
RA	2,455,141	T→G	5.6%	D169A (GAT→GCT)	yfcV ←	putative fimbrial‑like adhesin protein
RA	2,455,143	A→T	5.3%	A168A (GCT→GCA) ‡	yfcV ←	putative fimbrial‑like adhesin protein
RA	2,455,145	C→A	6.0%	A168S (GCT→TCT) ‡	yfcV ←	putative fimbrial‑like adhesin protein
RA	2,473,466	T→A	6.8%	pseudogene (120/708 nt)	oweS ←	pseudogene, CPS‑53 (KpLE1) prophage; bacteriophage replication protein O family;Phage or Prophage Related
RA	2,473,468	T→C	6.8%	pseudogene (118/708 nt)	oweS ←	pseudogene, CPS‑53 (KpLE1) prophage; bacteriophage replication protein O family;Phage or Prophage Related
RA	2,473,473	G→C	6.7%	pseudogene (113/708 nt)	oweS ←	pseudogene, CPS‑53 (KpLE1) prophage; bacteriophage replication protein O family;Phage or Prophage Related
RA	2,473,474	G→C	6.7%	pseudogene (112/708 nt)	oweS ←	pseudogene, CPS‑53 (KpLE1) prophage; bacteriophage replication protein O family;Phage or Prophage Related
RA	2,473,479	G→A	6.5%	pseudogene (107/708 nt)	oweS ←	pseudogene, CPS‑53 (KpLE1) prophage; bacteriophage replication protein O family;Phage or Prophage Related
RA	2,473,481	T→A	6.4%	pseudogene (105/708 nt)	oweS ←	pseudogene, CPS‑53 (KpLE1) prophage; bacteriophage replication protein O family;Phage or Prophage Related
RA	2,493,508	C→A	11.1%	intergenic (‑254/+259)	frc ← / ← yfdX	formyl‑CoA transferase, NAD(P)‑binding/uncharacterized protein
RA	2,507,332	G→A	5.6%	P188L (CCG→CTG)	fryC ←	putative enzyme IIC component of PTS
RA	2,507,335	A→T	5.6%	L187* (TTA→TAA)	fryC ←	putative enzyme IIC component of PTS
RA	2,507,338	T→C	5.5%	Q186R (CAG→CGG)	fryC ←	putative enzyme IIC component of PTS
RA	2,507,345	T→C	5.6%	K184E (AAA→GAA)	fryC ←	putative enzyme IIC component of PTS
RA	2,511,152	A→C	5.4%	D51A (GAC→GCC)	ypeC →	DUF2502 family putative periplasmic protein
RA	2,512,728	C→A	9.6%	intergenic (‑22/‑314)	mntH ← / → nupC	manganese/divalent cation transporter/nucleoside (except guanosine) transporter
RA	2,512,729	T→A	9.0%	intergenic (‑23/‑313)	mntH ← / → nupC	manganese/divalent cation transporter/nucleoside (except guanosine) transporter
RA	2,512,730	T→A	10.7%	intergenic (‑24/‑312)	mntH ← / → nupC	manganese/divalent cation transporter/nucleoside (except guanosine) transporter
RA	2,512,731	T→G	9.0%	intergenic (‑25/‑311)	mntH ← / → nupC	manganese/divalent cation transporter/nucleoside (except guanosine) transporter
RA	2,521,344	C→T	15.6%	intergenic (+16/+249)	lysV → / ← xapR	tRNA‑Lys/transcriptional activator of xapAB
RA	2,521,346	A→T	14.1%	intergenic (+18/+247)	lysV → / ← xapR	tRNA‑Lys/transcriptional activator of xapAB
RA	2,521,348	A→G	16.0%	intergenic (+20/+245)	lysV → / ← xapR	tRNA‑Lys/transcriptional activator of xapAB
RA	2,525,907	G→A	6.8%	intergenic (+16/+23)	yfeN → / ← yfeR	putative outer membrane protein/transcriptional regulator of yefH
RA	2,525,908	C→G	6.5%	intergenic (+17/+22)	yfeN → / ← yfeR	putative outer membrane protein/transcriptional regulator of yefH
RA	2,537,641	C→T	5.9%	S100S (AGC→AGT)	yfeK →	uncharacterized protein
JC	2,553,345	Δ3 bp	6.6%	coding (121‑123/900 nt)	hemF →	coproporphyrinogen III oxidase
RA	2,555,201	T→C	9.9%	intergenic (‑19/+27)	eutR ← / ← eutK	eut operon transcriptional activator, AraC family/putative ethanol utilization carboxysome structural protein
RA	2,555,202	G→C	10.0%	intergenic (‑20/+26)	eutR ← / ← eutK	eut operon transcriptional activator, AraC family/putative ethanol utilization carboxysome structural protein
RA	2,555,205	G→C	9.8%	intergenic (‑23/+23)	eutR ← / ← eutK	eut operon transcriptional activator, AraC family/putative ethanol utilization carboxysome structural protein
RA	2,555,206	G→A	11.4%	intergenic (‑24/+22)	eutR ← / ← eutK	eut operon transcriptional activator, AraC family/putative ethanol utilization carboxysome structural protein
RA	2,560,317	A→C	7.3%	N21H (AAT→CAT)	yffL →	CPZ‑55 prophage; uncharacterized protein
RA	2,560,321	C→T	7.7%	A22V (GCT→GTT)	yffL →	CPZ‑55 prophage; uncharacterized protein
RA	2,560,326	A→G	7.3%	T24A (ACA→GCA)	yffL →	CPZ‑55 prophage; uncharacterized protein
RA	2,560,330	G→T	7.2%	C25F (TGC→TTC)	yffL →	CPZ‑55 prophage; uncharacterized protein
RA	2,560,985	C→A	14.3%	intergenic (+87/‑383)	yffL → / → yffM	CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein
RA	2,566,490	C→T	7.2%	G132D (GGT→GAT)	eutA ←	reactivating factor for ethanolamine ammonia lyase
RA	2,566,493	G→C	6.8%	A131G (GCC→GGC)	eutA ←	reactivating factor for ethanolamine ammonia lyase
RA	2,566,496	A→G	6.7%	I130T (ATC→ACC)	eutA ←	reactivating factor for ethanolamine ammonia lyase
RA	2,596,873	Δ1 bp	11.0%	intergenic (‑136/+32)	ypfJ ← / ← purC	putative neutral zinc metallopeptidase/phosphoribosylaminoimidazole‑succinocarboxamide synthetase
RA	2,596,878:1	+G	10.7%	intergenic (‑141/+27)	ypfJ ← / ← purC	putative neutral zinc metallopeptidase/phosphoribosylaminoimidazole‑succinocarboxamide synthetase
RA	2,599,241	T→A	5.7%	K174* (AAA→TAA)	dapA ←	dihydrodipicolinate synthase
RA	2,599,244	T→G	5.1%	I173L (ATC→CTC)	dapA ←	dihydrodipicolinate synthase
RA	2,604,990	G→C	7.5%	T60T (ACG→ACC)	hyfD →	hydrogenase 4, membrane subunit
RA	2,614,800	A→C	6.0%	intergenic (+18/+20)	focB → / ← yfgO	putative formate transporter/putative UPF0118 family inner membrane permease
RA	2,622,540	C→T	5.6%	R103C (CGT→TGT)	purN →	phosphoribosylglycinamide formyltransferase 1
RA	2,624,195	C→G	5.8%	D384E (GAC→GAG)	ppk →	polyphosphate kinase, component of RNA degradosome
RA	2,630,918	A→T	9.1%	intergenic (+53/+40)	yfgI → / ← guaA	nalidixic acid resistance protein, putative periplasmic protein/GMP synthetase (glutamine aminotransferase)
RA	2,630,919	G→A	9.3%	intergenic (+54/+39)	yfgI → / ← guaA	nalidixic acid resistance protein, putative periplasmic protein/GMP synthetase (glutamine aminotransferase)
RA	2,630,920	T→C	9.2%	intergenic (+55/+38)	yfgI → / ← guaA	nalidixic acid resistance protein, putative periplasmic protein/GMP synthetase (glutamine aminotransferase)
RA	2,630,921	A→T	9.1%	intergenic (+56/+37)	yfgI → / ← guaA	nalidixic acid resistance protein, putative periplasmic protein/GMP synthetase (glutamine aminotransferase)
RA	2,632,584	A→T	7.4%	intergenic (‑49/+20)	guaA ← / ← guaB	GMP synthetase (glutamine aminotransferase)/IMP dehydrogenase
RA	2,632,586	G→C	8.5%	intergenic (‑51/+18)	guaA ← / ← guaB	GMP synthetase (glutamine aminotransferase)/IMP dehydrogenase
RA	2,632,588	A→T	9.9%	intergenic (‑53/+16)	guaA ← / ← guaB	GMP synthetase (glutamine aminotransferase)/IMP dehydrogenase
RA	2,637,438	T→G	7.5%	intergenic (‑82/+36)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,638,584	A→T	9.2%	F23L (TTT→TTA)	bamB ←	BamABCDE complex OM biogenesis lipoprotein
RA	2,652,131	G→T	5.4%	P53T (CCG→ACG)	yfhM ←	bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein
RA	2,652,133	A→C	6.5%	V52G (GTG→GGG)	yfhM ←	bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein
RA	2,653,105	G→C	6.5%	W204C (TGG→TGC)	sseA →	3‑mercaptopyruvate sulfurtransferase
RA	2,657,426	G→A	7.1%	L504L (CTG→TTG)	hscA ←	DnaK‑like molecular chaperone specific for IscU
RA	2,657,432	A→C	5.3%	Y502D (TAC→GAC)	hscA ←	DnaK‑like molecular chaperone specific for IscU
RA	2,657,433	A→T	6.6%	S501S (TCT→TCA) ‡	hscA ←	DnaK‑like molecular chaperone specific for IscU
RA	2,657,434	G→T	5.2%	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	2,673,790	G→T	8.3%	intergenic (+22/+26)	yphA → / ← yphB	DoxX family inner membrane protein/mutarotase superfamily protein, YphB family
RA	2,675,600	T→G	7.0%	T54T (ACA→ACC)	yphC ←	putative Zn‑dependent NAD(P)‑binding oxidoreductase
RA	2,687,173	Δ1 bp	48.3%	coding (236/339 nt)	glnB ←	regulatory protein P‑II for glutamine synthetase
RA	2,687,175	A→G	55.6%	I78I (ATT→ATC)	glnB ←	regulatory protein P‑II for glutamine synthetase
RA	2,687,178	A→G	54.8%	I77I (ATT→ATC)	glnB ←	regulatory protein P‑II for glutamine synthetase
RA	2,687,181	G→C	55.0%	T76T (ACC→ACG)	glnB ←	regulatory protein P‑II for glutamine synthetase
RA	2,687,184	A→C	55.4%	D75E (GAT→GAG) ‡	glnB ←	regulatory protein P‑II for glutamine synthetase
RA	2,687,185	T→G	53.7%	D75A (GAT→GCT) ‡	glnB ←	regulatory protein P‑II for glutamine synthetase
RA	2,691,169	A→T	8.4%	noncoding (172/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,691,171	T→A	9.5%	noncoding (170/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,691,173	A→T	8.3%	noncoding (168/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,706,606	G→T	7.1%	L173L (CTC→CTA) ‡	lepA ←	back‑translocating elongation factor EF4, GTPase
RA	2,706,607	A→C	7.1%	L173R (CTC→CGC) ‡	lepA ←	back‑translocating elongation factor EF4, GTPase
RA	2,715,258	A→G	5.9%	A21A (GCT→GCC) ‡	yfiE ←	putative DNA‑binding transcriptional regulator
RA	2,715,259	G→C	7.9%	A21G (GCT→GGT) ‡	yfiE ←	putative DNA‑binding transcriptional regulator
RA	2,715,260	C→T	5.8%	A21T (GCT→ACT) ‡	yfiE ←	putative DNA‑binding transcriptional regulator
RA	2,716,030	T→G	6.8%	intergenic (+20/+36)	eamB → / ← grcA	cysteine and O‑acetylserine exporter/autonomous glycyl radical cofactor
RA	2,726,043	G→T	6.8%	intergenic (‑297/+26)	kgtP ← / ← rrfG	alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon
RA	2,726,044	T→G	6.4%	intergenic (‑298/+25)	kgtP ← / ← rrfG	alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon
RA	2,726,046	A→C	5.6%	intergenic (‑300/+23)	kgtP ← / ← rrfG	alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon
RA	2,736,913	T→A	10.2%	intergenic (+30/‑241)	bamD → / → raiA	BamABCDE complex OM biogenesis lipoprotein/cold shock protein associated with 30S ribosomal subunit
RA	2,736,916	A→G	7.1%	intergenic (+33/‑238)	bamD → / → raiA	BamABCDE complex OM biogenesis lipoprotein/cold shock protein associated with 30S ribosomal subunit
RA	2,742,794	G→T	11.0%	E138* (GAA→TAA) ‡	yfiN →	putative membrane‑anchored diguanylate cyclase
RA	2,742,795	A→T	11.3%	E138V (GAA→GTA) ‡	yfiN →	putative membrane‑anchored diguanylate cyclase
RA	2,742,796	A→C	12.5%	E138D (GAA→GAC) ‡	yfiN →	putative membrane‑anchored diguanylate cyclase
RA	2,744,135	C→T	6.5%	intergenic (+28/+48)	yfiB → / ← rplS	OM lipoprotein putative positive effector of YfiN activity/50S ribosomal subunit protein L19
RA	2,744,136	A→G	6.6%	intergenic (+29/+47)	yfiB → / ← rplS	OM lipoprotein putative positive effector of YfiN activity/50S ribosomal subunit protein L19
RA	2,744,147	C→T	7.7%	intergenic (+40/+36)	yfiB → / ← rplS	OM lipoprotein putative positive effector of YfiN activity/50S ribosomal subunit protein L19
RA	2,744,148	A→G	7.7%	intergenic (+41/+35)	yfiB → / ← rplS	OM lipoprotein putative positive effector of YfiN activity/50S ribosomal subunit protein L19
RA	2,745,267	C→G	5.2%	A25P (GCA→CCA)	trmD ←	tRNA m(1)G37 methyltransferase, SAM‑dependent
RA	2,745,272	C→G	5.2%	G23A (GGC→GCC)	trmD ←	tRNA m(1)G37 methyltransferase, SAM‑dependent
RA	2,753,986	A→T	9.1%	intergenic (+40/+22)	bamE → / ← ratB	lipoprotein component of BamABCDE OM biogenesis complex/UPF0125 family protein
RA	2,761,620	T→G	10.8%	K641Q (AAG→CAG)	yfjK ←	radiation resistance protein; DEAD/H helicase‑like protein; CP4‑57 putative defective prophage
RA	2,761,623	C→A	11.1%	V640L (GTA→TTA)	yfjK ←	radiation resistance protein; DEAD/H helicase‑like protein; CP4‑57 putative defective prophage
RA	2,762,222	A→C	5.9%	I440S (ATC→AGC)	yfjK ←	radiation resistance protein; DEAD/H helicase‑like protein; CP4‑57 putative defective prophage
RA	2,768,609	T→C	6.1%	intergenic (+36/‑56)	yfjP → / → yfjQ	CP4‑57 prophage; 50S ribosome‑binding GTPase family protein/CP4‑57 prophage; uncharacterized protein
RA	2,768,614	A→C	6.0%	intergenic (+41/‑51)	yfjP → / → yfjQ	CP4‑57 prophage; 50S ribosome‑binding GTPase family protein/CP4‑57 prophage; uncharacterized protein
RA	2,768,615	G→T	5.7%	intergenic (+42/‑50)	yfjP → / → yfjQ	CP4‑57 prophage; 50S ribosome‑binding GTPase family protein/CP4‑57 prophage; uncharacterized protein
RA	2,768,620	G→A	6.6%	intergenic (+47/‑45)	yfjP → / → yfjQ	CP4‑57 prophage; 50S ribosome‑binding GTPase family protein/CP4‑57 prophage; uncharacterized protein
RA	2,777,571	A→G	8.0%	D40G (GAC→GGC)	ypjF →	CP4‑57 prophage; toxin of the YpjF‑YfjZ toxin‑antitoxin system
RA	2,777,573	A→G	8.0%	T41A (ACG→GCG) ‡	ypjF →	CP4‑57 prophage; toxin of the YpjF‑YfjZ toxin‑antitoxin system
RA	2,777,574	C→T	8.1%	T41M (ACG→ATG) ‡	ypjF →	CP4‑57 prophage; toxin of the YpjF‑YfjZ toxin‑antitoxin system
RA	2,777,576	C→T	7.5%	P42S (CCG→TCG)	ypjF →	CP4‑57 prophage; toxin of the YpjF‑YfjZ toxin‑antitoxin system
RA	2,788,676	A→T	11.0%	intergenic (+27/‑309)	ygaQ → / → csiD	uncharacterized protein; putative enzyme/carbon starvation protein
RA	2,794,080	A→G	6.2%	intergenic (+65/‑173)	gabT → / → gabP	4‑aminobutyrate aminotransferase, PLP‑dependent/gamma‑aminobutyrate transporter
RA	2,794,081	A→C	6.1%	intergenic (+66/‑172)	gabT → / → gabP	4‑aminobutyrate aminotransferase, PLP‑dependent/gamma‑aminobutyrate transporter
RA	2,794,087	T→A	7.3%	intergenic (+72/‑166)	gabT → / → gabP	4‑aminobutyrate aminotransferase, PLP‑dependent/gamma‑aminobutyrate transporter
RA	2,794,088	T→A	7.1%	intergenic (+73/‑165)	gabT → / → gabP	4‑aminobutyrate aminotransferase, PLP‑dependent/gamma‑aminobutyrate transporter
RA	2,801,056	A→T	14.2%	N31I (AAT→ATT)	nrdI →	NrdEF cluster assembly flavodoxin
RA	2,810,872	C→T	7.0%	H35Y (CAC→TAC) ‡	mprA →	transcriptional repressor of microcin B17 synthesis and multidrug efflux
RA	2,810,873	A→G	6.9%	H35R (CAC→CGC) ‡	mprA →	transcriptional repressor of microcin B17 synthesis and multidrug efflux
RA	2,814,174	T→A	7.0%	intergenic (+20/+44)	emrB → / ← luxS	multidrug efflux system protein/S‑ribosylhomocysteine lyase
RA	2,814,175	T→A	7.0%	intergenic (+21/+43)	emrB → / ← luxS	multidrug efflux system protein/S‑ribosylhomocysteine lyase
RA	2,828,569	C→A	5.7%	intergenic (+53/‑52)	srlD → / → srlM	sorbitol‑6‑phosphate dehydrogenase/sorbitol=responsive srl operon transcriptional activator
RA	2,828,572	T→G	5.8%	intergenic (+56/‑49)	srlD → / → srlM	sorbitol‑6‑phosphate dehydrogenase/sorbitol=responsive srl operon transcriptional activator
RA	2,834,230	A→C	5.2%	T107P (ACC→CCC)	norW →	NADH:flavorubredoxin oxidoreductase
RA	2,835,133	T→A	5.2%	intergenic (+88/+40)	norW → / ← hypF	NADH:flavorubredoxin oxidoreductase/carbamoyl phosphate phosphatase and [NiFe] hydrogenase maturation protein
RA	2,838,222	A→T	7.5%	intergenic (‑117/+32)	hydN ← / ← ascG	formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit/asc operon transcriptional repressor; prpBC operon repressor
RA	2,838,231	A→T	6.4%	intergenic (‑126/+23)	hydN ← / ← ascG	formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit/asc operon transcriptional repressor; prpBC operon repressor
RA	2,859,332	T→G	7.3%	L747R (CTC→CGC) ‡	mutS →	methyl‑directed mismatch repair protein
RA	2,859,333	C→A	7.2%	L747L (CTC→CTA) ‡	mutS →	methyl‑directed mismatch repair protein
RA	2,894,845	G→A	7.0%	intergenic (+74/+74)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,894,846	C→A	7.0%	intergenic (+75/+73)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,894,852	T→G	6.9%	intergenic (+81/+67)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,894,854	G→C	7.9%	intergenic (+83/+65)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,894,856	C→A	8.4%	intergenic (+85/+63)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,894,862	T→G	7.3%	intergenic (+91/+57)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,894,863	T→C	7.5%	intergenic (+92/+56)	ygcP → / ← ygcQ	putative antiterminator regulatory protein/putative flavoprotein
RA	2,902,494	G→T	6.2%	G200V (GGA→GTA) ‡	ygcE →	putative kinase
RA	2,902,495	A→C	5.8%	G200G (GGA→GGC) ‡	ygcE →	putative kinase
RA	2,908,486	G→C	5.5%	A394G (GCC→GGC)	pyrG ←	CTP synthetase
RA	2,911,007	G→A	5.5%	R29C (CGT→TGT)	mazF ←	mRNA interferase toxin, antitoxin is MazE
RA	2,911,008	A→T	5.5%	H28Q (CAT→CAA) ‡	mazF ←	mRNA interferase toxin, antitoxin is MazE
RA	2,911,009	T→C	5.6%	H28R (CAT→CGT) ‡	mazF ←	mRNA interferase toxin, antitoxin is MazE
RA	2,917,895	G→A	5.6%	intergenic (+82/+150)	barA → / ← gudD	hybrid sensory histidine kinase, in two‑component regulatory system with UvrY/D‑glucarate dehydratase 1
RA	2,917,909	T→G	5.9%	intergenic (+96/+136)	barA → / ← gudD	hybrid sensory histidine kinase, in two‑component regulatory system with UvrY/D‑glucarate dehydratase 1
RA	2,917,910	T→C	6.4%	intergenic (+97/+135)	barA → / ← gudD	hybrid sensory histidine kinase, in two‑component regulatory system with UvrY/D‑glucarate dehydratase 1
RA	2,945,977	T→G	5.3%	intergenic (‑135/+104)	tcdA ← / ← mltA	tRNA threonylcarbamoyladenosine dehydratase; sulfur acceptor for CsdA/membrane‑bound lytic murein transglycosylase A
RA	2,945,978	C→A	5.2%	intergenic (‑136/+103)	tcdA ← / ← mltA	tRNA threonylcarbamoyladenosine dehydratase; sulfur acceptor for CsdA/membrane‑bound lytic murein transglycosylase A
RA	2,945,984	G→T	5.7%	intergenic (‑142/+97)	tcdA ← / ← mltA	tRNA threonylcarbamoyladenosine dehydratase; sulfur acceptor for CsdA/membrane‑bound lytic murein transglycosylase A
RA	2,945,985	C→T	5.6%	intergenic (‑143/+96)	tcdA ← / ← mltA	tRNA threonylcarbamoyladenosine dehydratase; sulfur acceptor for CsdA/membrane‑bound lytic murein transglycosylase A
RA	2,957,107	C→G	5.7%	S593T (AGT→ACT)	ptrA ←	protease III
RA	2,976,320	T→G	5.4%	noncoding (66/82 nt)	omrB ←	sRNA antisense regulator downregulates OM proteins and curli; positively regulated by OmpR/EnvZ, Hfq‑dependent
RA	2,987,230	A→G	6.7%	intergenic (+154/‑306)	yqeG → / → yqeH	putative transporter/putative LuxR family transcriptional regulator
RA	2,987,231	G→T	7.2%	intergenic (+155/‑305)	yqeG → / → yqeH	putative transporter/putative LuxR family transcriptional regulator
RA	2,987,232	A→C	6.5%	intergenic (+156/‑304)	yqeG → / → yqeH	putative transporter/putative LuxR family transcriptional regulator
RA	2,987,233	C→T	6.6%	intergenic (+157/‑303)	yqeG → / → yqeH	putative transporter/putative LuxR family transcriptional regulator
RA	2,988,208	G→A	6.1%	intergenic (+40/‑294)	yqeH → / → yqeI	putative LuxR family transcriptional regulator/putative transcriptional regulator
RA	2,988,214	A→C	5.1%	intergenic (+46/‑288)	yqeH → / → yqeI	putative LuxR family transcriptional regulator/putative transcriptional regulator
RA	2,988,215	T→A	5.7%	intergenic (+47/‑287)	yqeH → / → yqeI	putative LuxR family transcriptional regulator/putative transcriptional regulator
RA	2,988,223	T→C	5.1%	intergenic (+55/‑279)	yqeH → / → yqeI	putative LuxR family transcriptional regulator/putative transcriptional regulator
RA	3,002,530	G→A	100%	G729D (GGT→GAT)	xdhA →	xanthine dehydrogenase, molybdenum binding subunit
RA	3,012,938	T→A	6.8%	R434R (CGA→CGT)	yqeB ←	XdhC‑CoxI family protein with NAD(P)‑binding Rossman fold
RA	3,013,616	A→G	5.3%	R208R (CGT→CGC)	yqeB ←	XdhC‑CoxI family protein with NAD(P)‑binding Rossman fold
RA	3,020,510	G→T	7.1%	intergenic (+21/‑30)	ssnA → / → ygfM	putative chlorohydrolase/aminohydrolase/putative oxidoreductase
RA	3,020,511	C→G	7.8%	intergenic (+22/‑29)	ssnA → / → ygfM	putative chlorohydrolase/aminohydrolase/putative oxidoreductase
RA	3,020,512	A→C	8.5%	intergenic (+23/‑28)	ssnA → / → ygfM	putative chlorohydrolase/aminohydrolase/putative oxidoreductase
RA	3,032,708	C→G	6.0%	H448D (CAT→GAT)	uacT →	uric acid permease
RA	3,037,386	Δ1 bp	5.9%	coding (721/1734 nt)	recJ ←	ssDNA exonuclease, 5' ‑‑> 3'‑specific
RA	3,045,124	T→C	9.4%	intergenic (+23/+34)	bglA → / ← ygfF	6‑phospho‑beta‑glucosidase A/putative NAD(P)‑dependent oxidoreductase
RA	3,045,126	C→A	9.2%	intergenic (+25/+32)	bglA → / ← ygfF	6‑phospho‑beta‑glucosidase A/putative NAD(P)‑dependent oxidoreductase
RA	3,045,127	T→G	9.8%	intergenic (+26/+31)	bglA → / ← ygfF	6‑phospho‑beta‑glucosidase A/putative NAD(P)‑dependent oxidoreductase
RA	3,045,129	G→A	9.7%	intergenic (+28/+29)	bglA → / ← ygfF	6‑phospho‑beta‑glucosidase A/putative NAD(P)‑dependent oxidoreductase
RA	3,046,075	A→T	5.0%	intergenic (‑174/+93)	ygfF ← / ← gcvP	putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex
RA	3,046,076	A→T	5.7%	intergenic (‑175/+92)	ygfF ← / ← gcvP	putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex
RA	3,046,077	A→T	6.6%	intergenic (‑176/+91)	ygfF ← / ← gcvP	putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex
RA	3,046,082	C→A	5.2%	intergenic (‑181/+86)	ygfF ← / ← gcvP	putative NAD(P)‑dependent oxidoreductase/glycine decarboxylase, PLP‑dependent, subunit P of glycine cleavage complex
RA	3,049,575	A→C	10.1%	*365G (TGA→GGA)	gcvT ←	aminomethyltransferase, tetrahydrofolate‑dependent, subunit (T protein) of glycine cleavage complex
RA	3,052,886	C→G	7.2%	A211A (GCG→GCC)	ubiH ←	2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding
RA	3,052,890	A→C	8.5%	L210R (CTG→CGG)	ubiH ←	2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding
RA	3,052,893	G→T	6.7%	P209Q (CCG→CAG)	ubiH ←	2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding
RA	3,052,897	C→G	6.6%	G208R (GGC→CGC)	ubiH ←	2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding
RA	3,054,881	T→G	17.2%	K188N (AAA→AAC)	ygfB ←	UPF0149 family protein
RA	3,057,140	A→G	7.7%	intergenic (+152/+38)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,057,145	G→C	7.5%	intergenic (+157/+33)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,057,150	C→T	5.5%	intergenic (+162/+28)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,059,704	A→T	7.6%	intergenic (‑3/‑49)	yqfE ← / → argP	pseudogene, LysR family/transcriptional regulator for arginine transport and DNA replication genes; replication initiation inhibitor
RA	3,067,320	A→T	9.3%	intergenic (‑147/+20)	ygfI ← / ← yggE	putative DNA‑binding transcriptional regulator/oxidative stress defense protein
RA	3,067,323	A→T	8.0%	intergenic (‑150/+17)	ygfI ← / ← yggE	putative DNA‑binding transcriptional regulator/oxidative stress defense protein
RA	3,082,821	T→G	5.0%	intergenic (+150/+56)	loiP → / ← speB	Phe‑Phe periplasmic metalloprotease, OM lipoprotein; low salt‑inducible; Era‑binding heat shock protein/agmatinase
RA	3,092,779	Δ1 bp	5.2%	coding (902/951 nt)	gshB →	glutathione synthetase
RA	3,105,532	C→G	6.1%	intergenic (+20/‑182)	mltC → / → nupG	membrane‑bound lytic murein transglycosylase C/nucleoside transporter
RA	3,105,533	G→C	5.9%	intergenic (+21/‑181)	mltC → / → nupG	membrane‑bound lytic murein transglycosylase C/nucleoside transporter
RA	3,105,536	G→C	6.1%	intergenic (+24/‑178)	mltC → / → nupG	membrane‑bound lytic murein transglycosylase C/nucleoside transporter
RA	3,105,537	C→G	6.0%	intergenic (+25/‑177)	mltC → / → nupG	membrane‑bound lytic murein transglycosylase C/nucleoside transporter
RA	3,114,519	G→A	8.4%	intergenic (‑167/+31)	pppA ← / ← sslE	bifunctional prepilin leader peptidase/ methylase/putative secreted and surface‑associated lipoprotein mucinase
RA	3,114,526	G→T	6.4%	intergenic (‑174/+24)	pppA ← / ← sslE	bifunctional prepilin leader peptidase/ methylase/putative secreted and surface‑associated lipoprotein mucinase
RA	3,114,527	A→C	8.4%	intergenic (‑175/+23)	pppA ← / ← sslE	bifunctional prepilin leader peptidase/ methylase/putative secreted and surface‑associated lipoprotein mucinase
RA	3,114,533	T→G	10.3%	intergenic (‑181/+17)	pppA ← / ← sslE	bifunctional prepilin leader peptidase/ methylase/putative secreted and surface‑associated lipoprotein mucinase
RA	3,114,534	T→C	8.7%	intergenic (‑182/+16)	pppA ← / ← sslE	bifunctional prepilin leader peptidase/ methylase/putative secreted and surface‑associated lipoprotein mucinase
RA	3,119,571	A→C	6.0%	intergenic (‑459/+26)	sslE ← / ← glcA	putative secreted and surface‑associated lipoprotein mucinase/glycolate transporter
RA	3,119,572	T→G	6.5%	intergenic (‑460/+25)	sslE ← / ← glcA	putative secreted and surface‑associated lipoprotein mucinase/glycolate transporter
RA	3,119,574	A→T	5.8%	intergenic (‑462/+23)	sslE ← / ← glcA	putative secreted and surface‑associated lipoprotein mucinase/glycolate transporter
RA	3,119,576	C→A	6.5%	intergenic (‑464/+21)	sslE ← / ← glcA	putative secreted and surface‑associated lipoprotein mucinase/glycolate transporter
RA	3,119,577	G→T	6.5%	intergenic (‑465/+20)	sslE ← / ← glcA	putative secreted and surface‑associated lipoprotein mucinase/glycolate transporter
RA	3,124,929	G→C	6.1%	A177A (GCC→GCG)	glcF ←	glycolate oxidase 4Fe‑4S iron‑sulfur cluster subunit
RA	3,124,932	G→C	6.1%	C176W (TGC→TGG)	glcF ←	glycolate oxidase 4Fe‑4S iron‑sulfur cluster subunit
RA	3,136,628	T→G	7.7%	intergenic (‑257/+35)	pitB ← / ← gss	phosphate transporter/glutathionylspermidine amidase and glutathionylspermidine synthetase
RA	3,136,629	C→A	8.0%	intergenic (‑258/+34)	pitB ← / ← gss	phosphate transporter/glutathionylspermidine amidase and glutathionylspermidine synthetase
RA	3,136,630	T→A	7.6%	intergenic (‑259/+33)	pitB ← / ← gss	phosphate transporter/glutathionylspermidine amidase and glutathionylspermidine synthetase
RA	3,136,631	T→G	7.6%	intergenic (‑260/+32)	pitB ← / ← gss	phosphate transporter/glutathionylspermidine amidase and glutathionylspermidine synthetase
RA	3,136,632	C→A	7.4%	intergenic (‑261/+31)	pitB ← / ← gss	phosphate transporter/glutathionylspermidine amidase and glutathionylspermidine synthetase
RA	3,139,675	G→A	5.7%	intergenic (+82/+41)	yghU → / ← hybG	putative S‑transferase/hydrogenase 2 accessory protein
RA	3,139,676	C→A	5.7%	intergenic (+83/+40)	yghU → / ← hybG	putative S‑transferase/hydrogenase 2 accessory protein
RA	3,139,682	T→G	5.6%	intergenic (+89/+34)	yghU → / ← hybG	putative S‑transferase/hydrogenase 2 accessory protein
RA	3,139,685	C→A	5.8%	intergenic (+92/+31)	yghU → / ← hybG	putative S‑transferase/hydrogenase 2 accessory protein
RA	3,139,691	T→G	6.9%	intergenic (+98/+25)	yghU → / ← hybG	putative S‑transferase/hydrogenase 2 accessory protein
RA	3,139,692	T→C	5.7%	intergenic (+99/+24)	yghU → / ← hybG	putative S‑transferase/hydrogenase 2 accessory protein
RA	3,146,761	T→G	7.4%	intergenic (‑24/+95)	yghW ← / ← yghX	DUF2623 family protein/pseudogene, dienlactone hydrolase family
RA	3,146,762	G→A	7.3%	intergenic (‑25/+94)	yghW ← / ← yghX	DUF2623 family protein/pseudogene, dienlactone hydrolase family
RA	3,146,763	T→C	7.1%	intergenic (‑26/+93)	yghW ← / ← yghX	DUF2623 family protein/pseudogene, dienlactone hydrolase family
RA	3,146,764	C→A	7.0%	intergenic (‑27/+92)	yghW ← / ← yghX	DUF2623 family protein/pseudogene, dienlactone hydrolase family
RA	3,155,227	C→A	9.8%	intergenic (‑9/‑128)	yqhC ← / → yqhD	transcriptional activator of yqhD/aldehyde reductase, NADPH‑dependent
RA	3,155,228	A→G	10.4%	intergenic (‑10/‑127)	yqhC ← / → yqhD	transcriptional activator of yqhD/aldehyde reductase, NADPH‑dependent
RA	3,155,229	C→T	10.5%	intergenic (‑11/‑126)	yqhC ← / → yqhD	transcriptional activator of yqhD/aldehyde reductase, NADPH‑dependent
RA	3,155,230	T→G	10.2%	intergenic (‑12/‑125)	yqhC ← / → yqhD	transcriptional activator of yqhD/aldehyde reductase, NADPH‑dependent
RA	3,156,590	C→A	6.7%	intergenic (+72/‑33)	yqhD → / → dkgA	aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A
RA	3,156,591	T→G	6.7%	intergenic (+73/‑32)	yqhD → / → dkgA	aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A
RA	3,171,852	C→T	6.9%	intergenic (+19/+27)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,171,857	A→T	7.2%	intergenic (+24/+22)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,171,858	A→T	7.4%	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	7.3%	intergenic (+30/+16)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,181,290	A→T	6.6%	E290D (GAA→GAT)	ygiC →	ATP‑Grasp family ATPase
RA	3,181,298	A→T	7.3%	H293L (CAT→CTT)	ygiC →	ATP‑Grasp family ATPase
RA	3,183,345:1	+T	5.1%	intergenic (+22/+468)	zupT → / ← ribB	zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase
RA	3,192,129	T→A	5.5%	intergenic (‑190/‑79)	glgS ← / → yqiJ	motility and biofilm regulator/DUF1449 family inner membrane protein
RA	3,192,132	T→A	5.5%	intergenic (‑193/‑76)	glgS ← / → yqiJ	motility and biofilm regulator/DUF1449 family inner membrane protein
RA	3,216,666	T→G	5.4%	intergenic (‑175/‑113)	yqjH ← / → yqjI	putative siderophore interacting protein/PadR family putative transcriptional regulator
RA	3,233,825	A→T	5.8%	V107E (GTG→GAG) ‡	higA ←	antitoxinof the HigB‑HigA toxin‑antitoxin system
RA	3,233,826	C→A	5.5%	V107L (GTG→TTG) ‡	higA ←	antitoxinof the HigB‑HigA toxin‑antitoxin system
RA	3,233,921	T→C	5.6%	Q75R (CAA→CGA) ‡	higA ←	antitoxinof the HigB‑HigA toxin‑antitoxin system
RA	3,233,922	G→A	5.6%	Q75* (CAA→TAA) ‡	higA ←	antitoxinof the HigB‑HigA toxin‑antitoxin system
RA	3,234,506	G→A	5.5%	intergenic (‑51/+233)	higB ← / ← rlmG	mRNA interferase toxin of the HigB‑HigA toxin‑antitoxin system/23S rRNA m(2)G1835 methyltransferase, SAM‑dependent
RA	3,234,507	A→T	5.4%	intergenic (‑52/+232)	higB ← / ← rlmG	mRNA interferase toxin of the HigB‑HigA toxin‑antitoxin system/23S rRNA m(2)G1835 methyltransferase, SAM‑dependent
RA	3,234,508	T→C	5.5%	intergenic (‑53/+231)	higB ← / ← rlmG	mRNA interferase toxin of the HigB‑HigA toxin‑antitoxin system/23S rRNA m(2)G1835 methyltransferase, SAM‑dependent
RA	3,250,989	G→C	6.3%	intergenic (+35/‑35)	yqjF → / → yqjG	putative quinol oxidase subunit/putative S‑transferase
RA	3,250,990	A→T	6.7%	intergenic (+36/‑34)	yqjF → / → yqjG	putative quinol oxidase subunit/putative S‑transferase
RA	3,250,991	A→T	6.1%	intergenic (+37/‑33)	yqjF → / → yqjG	putative quinol oxidase subunit/putative S‑transferase
RA	3,250,992	G→C	6.3%	intergenic (+38/‑32)	yqjF → / → yqjG	putative quinol oxidase subunit/putative S‑transferase
RA	3,258,719	A→C	6.0%	S311A (TCA→GCA)	tdcG ←	L‑serine dehydratase 3, anaerobic
RA	3,263,500	G→A	14.4%	P54L (CCG→CTG) ‡	tdcD ←	propionate kinase/acetate kinase C, anaerobic
RA	3,263,501	G→C	15.0%	P54A (CCG→GCG) ‡	tdcD ←	propionate kinase/acetate kinase C, anaerobic
RA	3,263,502	T→C	15.3%	A53A (GCA→GCG)	tdcD ←	propionate kinase/acetate kinase C, anaerobic
RA	3,270,195	A→C	23.2%	intergenic (+593/+21)	yhaC → / ← rnpB	pentapetide repeats‑related protein/RNase P, M1 RNA component
RA	3,276,886	C→A	6.8%	intergenic (+33/‑116)	garD → / → prlF	D‑galactarate dehydrogenase/antitoxin of the SohA(PrlF)‑YhaV toxin‑antitoxin system
RA	3,276,887	T→C	6.8%	intergenic (+34/‑115)	garD → / → prlF	D‑galactarate dehydrogenase/antitoxin of the SohA(PrlF)‑YhaV toxin‑antitoxin system
RA	3,276,890	G→A	6.7%	intergenic (+37/‑112)	garD → / → prlF	D‑galactarate dehydrogenase/antitoxin of the SohA(PrlF)‑YhaV toxin‑antitoxin system
RA	3,276,891	T→G	7.2%	intergenic (+38/‑111)	garD → / → prlF	D‑galactarate dehydrogenase/antitoxin of the SohA(PrlF)‑YhaV toxin‑antitoxin system
RA	3,288,032	C→A	12.0%	intergenic (+22/‑58)	yraH → / → yraI	putative fimbrial‑like adhesin protein/putative periplasmic pilin chaperone
RA	3,288,033	T→G	10.0%	intergenic (+23/‑57)	yraH → / → yraI	putative fimbrial‑like adhesin protein/putative periplasmic pilin chaperone
RA	3,291,109	A→T	6.9%	K766* (AAA→TAA) ‡	yraJ →	putative outer membrane protein
RA	3,291,110	A→T	5.1%	K766I (AAA→ATA) ‡	yraJ →	putative outer membrane protein
RA	3,309,012	A→G	5.4%	intergenic (‑88/+21)	nlpI ← / ← pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase
RA	3,313,765	A→T	5.6%	A750A (GCT→GCA)	infB ←	translation initiation factor IF‑2
RA	3,322,040	A→G	5.1%	intergenic (‑427/+32)	yhbX ← / ← leuU	putative EptAB family phosphoethanolamine transferase, inner membrane protein/tRNA‑Leu
RA	3,322,048	T→G	6.7%	intergenic (‑435/+24)	yhbX ← / ← leuU	putative EptAB family phosphoethanolamine transferase, inner membrane protein/tRNA‑Leu
RA	3,322,049	T→A	6.9%	intergenic (‑436/+23)	yhbX ← / ← leuU	putative EptAB family phosphoethanolamine transferase, inner membrane protein/tRNA‑Leu
RA	3,322,050	T→A	6.8%	intergenic (‑437/+22)	yhbX ← / ← leuU	putative EptAB family phosphoethanolamine transferase, inner membrane protein/tRNA‑Leu
RA	3,322,051	C→A	7.6%	intergenic (‑438/+21)	yhbX ← / ← leuU	putative EptAB family phosphoethanolamine transferase, inner membrane protein/tRNA‑Leu
RA	3,328,182	A→T	6.0%	intergenic (+99/+57)	yhbY → / ← greA	RNA binding protein associated with pre‑50S ribosomal subunits/transcript cleavage factor
RA	3,328,183	T→A	6.4%	intergenic (+100/+56)	yhbY → / ← greA	RNA binding protein associated with pre‑50S ribosomal subunits/transcript cleavage factor
RA	3,328,184	A→T	6.8%	intergenic (+101/+55)	yhbY → / ← greA	RNA binding protein associated with pre‑50S ribosomal subunits/transcript cleavage factor
RA	3,334,703	A→G	13.1%	intergenic (+22/‑206)	ispB → / → sfsB	octaprenyl diphosphate synthase/malPQ operon transcriptional activator
RA	3,334,704	G→C	13.8%	intergenic (+23/‑205)	ispB → / → sfsB	octaprenyl diphosphate synthase/malPQ operon transcriptional activator
RA	3,334,705	C→T	11.5%	intergenic (+24/‑204)	ispB → / → sfsB	octaprenyl diphosphate synthase/malPQ operon transcriptional activator
RA	3,340,800	T→G	12.0%	F176V (TTT→GTT)	yrbG →	putative calcium/sodium:proton antiporter
RA	3,354,537	C→G	9.8%	intergenic (‑487/‑188)	yhcC ← / → gltB	putative Fe‑S oxidoreductase, Radical SAM superfamily protein/glutamate synthase, large subunit
RA	3,360,645	T→A	5.1%	intergenic (+29/‑531)	gltD → / → gltF	glutamate synthase, 4Fe‑4S protein, small subunit/periplasmic protein
RA	3,368,220	C→G	5.9%	L132V (CTG→GTG)	yhcG →	DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily
RA	3,370,704	A→C	7.4%	R111R (CGT→CGG)	nanE ←	putative N‑acetylmannosamine‑6‑P epimerase
RA	3,376,262	C→A	5.8%	intergenic (+26/+17)	dcuD → / ← sspB	putative transporter/ClpXP protease specificity enhancing factor
RA	3,376,263	C→G	5.8%	intergenic (+27/+16)	dcuD → / ← sspB	putative transporter/ClpXP protease specificity enhancing factor
RA	3,376,264	T→G	6.2%	intergenic (+28/+15)	dcuD → / ← sspB	putative transporter/ClpXP protease specificity enhancing factor
RA	3,376,265	G→C	5.9%	intergenic (+29/+14)	dcuD → / ← sspB	putative transporter/ClpXP protease specificity enhancing factor
RA	3,378,285	T→A	5.5%	K123* (AAA→TAA)	rplM ←	50S ribosomal subunit protein L13
RA	3,388,283	T→C	5.8%	T282A (ACA→GCA)	aaeA ←	p‑hydroxybenzoic acid efflux system component
RA	3,388,284	A→T	6.5%	A281A (GCT→GCA) ‡	aaeA ←	p‑hydroxybenzoic acid efflux system component
RA	3,388,285	G→A	5.8%	A281V (GCT→GTT) ‡	aaeA ←	p‑hydroxybenzoic acid efflux system component
RA	3,397,961	T→G	5.6%	S140R (AGC→CGC)	yhdE ←	dTTP/UTP pyrophosphatase; m(5)UTP/m(5)CTP/pseudo‑UTP pyrophosphatase
RA	3,397,965	G→T	6.5%	V138V (GTC→GTA) ‡	yhdE ←	dTTP/UTP pyrophosphatase; m(5)UTP/m(5)CTP/pseudo‑UTP pyrophosphatase
RA	3,397,967	C→T	6.5%	V138I (GTC→ATC) ‡	yhdE ←	dTTP/UTP pyrophosphatase; m(5)UTP/m(5)CTP/pseudo‑UTP pyrophosphatase
RA	3,397,968	A→G	6.5%	Y137Y (TAT→TAC) ‡	yhdE ←	dTTP/UTP pyrophosphatase; m(5)UTP/m(5)CTP/pseudo‑UTP pyrophosphatase
RA	3,397,970	A→C	6.6%	Y137D (TAT→GAT) ‡	yhdE ←	dTTP/UTP pyrophosphatase; m(5)UTP/m(5)CTP/pseudo‑UTP pyrophosphatase
RA	3,397,974	C→A	7.4%	A135A (GCG→GCT)	yhdE ←	dTTP/UTP pyrophosphatase; m(5)UTP/m(5)CTP/pseudo‑UTP pyrophosphatase
RA	3,405,586	C→T	5.4%	P51S (CCA→TCA)	accB →	acetyl CoA carboxylase, BCCP subunit
RA	3,406,134	C→G	7.3%	T73S (ACC→AGC)	accC →	acetyl‑CoA carboxylase, biotin carboxylase subunit
RA	3,418,509	G→T	12.4%	M40I (ATG→ATT)	yhdV →	putative outer membrane protein
RA	3,423,620	A→G	10.3%	noncoding (36/76 nt)	thrV ←	tRNA‑Thr
RA	3,423,621	C→G	10.2%	noncoding (35/76 nt)	thrV ←	tRNA‑Thr
RA	3,423,622	C→T	10.4%	noncoding (34/76 nt)	thrV ←	tRNA‑Thr
RA	3,441,060	T→C	10.1%	K206E (AAG→GAG)	rpsD ←	30S ribosomal subunit protein S4
RA	3,441,061	G→C	10.5%	S205S (TCC→TCG) ‡	rpsD ←	30S ribosomal subunit protein S4
RA	3,441,062	G→A	9.8%	S205F (TCC→TTC) ‡	rpsD ←	30S ribosomal subunit protein S4
RA	3,442,572	A→G	6.1%	intergenic (‑101/+46)	rpsM ← / ← rpmJ	30S ribosomal subunit protein S13/50S ribosomal subunit protein L36
RA	3,442,573	T→A	5.9%	intergenic (‑102/+45)	rpsM ← / ← rpmJ	30S ribosomal subunit protein S13/50S ribosomal subunit protein L36
RA	3,442,574	C→T	5.9%	intergenic (‑103/+44)	rpsM ← / ← rpmJ	30S ribosomal subunit protein S13/50S ribosomal subunit protein L36
RA	3,445,085	C→A	11.6%	G49C (GGT→TGT)	rpsE ←	30S ribosomal subunit protein S5
RA	3,445,093	A→C	19.8%	V46G (GTT→GGT)	rpsE ←	30S ribosomal subunit protein S5
RA	3,448,353	G→A	5.2%	S72S (TCC→TCT)	rpsQ ←	30S ribosomal subunit protein S17
RA	3,448,356	T→C	5.4%	K71K (AAA→AAG) ‡	rpsQ ←	30S ribosomal subunit protein S17
RA	3,448,358	T→A	5.7%	K71* (AAA→TAA) ‡	rpsQ ←	30S ribosomal subunit protein S17
RA	3,448,360	G→A	6.3%	T70I (ACT→ATT)	rpsQ ←	30S ribosomal subunit protein S17
RA	3,448,363	T→C	5.0%	K69R (AAG→AGG)	rpsQ ←	30S ribosomal subunit protein S17
RA	3,454,088	T→A	15.7%	V437V (GTA→GTT)	gspA ←	general secretory pathway component, cryptic
RA	3,458,416	T→A	5.1%	I26I (ATT→ATA)	gspE →	general secretory pathway component, cryptic
RA	3,470,106	C→T	9.2%	intergenic (‑253/+39)	chiA ← / ← tufA	periplasmic endochitinase/translation elongation factor EF‑Tu 1
RA	3,470,107	G→T	9.4%	intergenic (‑254/+38)	chiA ← / ← tufA	periplasmic endochitinase/translation elongation factor EF‑Tu 1
RA	3,470,108	A→C	9.5%	intergenic (‑255/+37)	chiA ← / ← tufA	periplasmic endochitinase/translation elongation factor EF‑Tu 1
RA	3,470,109	A→G	9.4%	intergenic (‑256/+36)	chiA ← / ← tufA	periplasmic endochitinase/translation elongation factor EF‑Tu 1
RA	3,471,361	T→G	6.0%	intergenic (‑32/+39)	tufA ← / ← fusA	translation elongation factor EF‑Tu 1/protein chain elongation factor EF‑G, GTP‑binding
RA	3,471,362	C→A	7.0%	intergenic (‑33/+38)	tufA ← / ← fusA	translation elongation factor EF‑Tu 1/protein chain elongation factor EF‑G, GTP‑binding
RA	3,477,878	T→A	7.0%	intergenic (+20/+29)	slyX → / ← slyD	phi X174 lysis protein/FKBP‑type peptidyl prolyl cis‑trans isomerase (rotamase)
RA	3,482,558	G→T	16.5%	V424L (GTA→TTA)	yheS →	ABC‑F family protein predicted regulatory ATPase
RA	3,486,218	G→T	6.5%	Q33H (CAG→CAT)	crp →	cAMP‑activated global transcription factor, mediator of catabolite repression
RA	3,486,225	A→T	5.9%	K36* (AAA→TAA)	crp →	cAMP‑activated global transcription factor, mediator of catabolite repression
RA	3,504,887	C→A	8.4%	intergenic (+104/+48)	frlR → / ← yhfS	putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein
RA	3,512,585	T→G	5.2%	intergenic (‑241/+49)	yhfZ ← / ← trpS	putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase
RA	3,512,586	C→A	5.4%	intergenic (‑242/+48)	yhfZ ← / ← trpS	putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase
RA	3,512,592	G→T	6.5%	intergenic (‑248/+42)	yhfZ ← / ← trpS	putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase
RA	3,512,593	C→T	5.7%	intergenic (‑249/+41)	yhfZ ← / ← trpS	putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase
RA	3,533,039	T→G	5.6%	R74R (CGT→CGG)	pck →	phosphoenolpyruvate carboxykinase [ATP]
RA	3,560,455:1	+G	100%	intergenic (‑2/+1)	glpR ← / ← glpR	pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon
RA	3,566,212	C→G	6.4%	G124R (GGT→CGT)	glgP ←	glycogen phosphorylase
RA	3,566,215	T→A	6.5%	N123Y (AAC→TAC)	glgP ←	glycogen phosphorylase
RA	3,566,218	C→G	6.4%	G122R (GGT→CGT)	glgP ←	glycogen phosphorylase
RA	3,570,878	A→G	7.3%	W148R (TGG→CGG)	glgX ←	glycogen debranching enzyme
RA	3,570,880	G→C	7.2%	P147R (CCG→CGG)	glgX ←	glycogen debranching enzyme
RA	3,570,884	T→C	7.2%	T146A (ACG→GCG)	glgX ←	glycogen debranching enzyme
RA	3,570,885	G→A	7.2%	R145R (CGC→CGT)	glgX ←	glycogen debranching enzyme
RA	3,570,889	G→C	7.0%	P144R (CCG→CGG)	glgX ←	glycogen debranching enzyme
RA	3,570,891	C→T	7.2%	P143P (CCG→CCA)	glgX ←	glycogen debranching enzyme
RA	3,577,657	A→G	7.5%	intergenic (‑65/+74)	gntK ← / ← gntR	gluconate kinase 2/d‑gluconate inducible gluconate regulon transcriptional repressor
RA	3,577,660	C→T	7.5%	intergenic (‑68/+71)	gntK ← / ← gntR	gluconate kinase 2/d‑gluconate inducible gluconate regulon transcriptional repressor
RA	3,579,902	A→G	5.2%	Y302H (TAT→CAT)	yhhX ←	putative oxidoreductase
RA	3,607,367	C→G	5.2%	A306G (GCC→GGC)	zntA →	zinc, cobalt and lead efflux system
RA	3,630,661	A→T	7.1%	intergenic (‑59/+307)	yhiI ← / ← yhiJ	putative membrane fusion protein (MFP) of efflux pump/DUF4049 family protein
RA	3,642,358	T→A	8.3%	intergenic (+27/+22)	dtpB → / ← rsmJ	dipeptide and tripeptide permease B/16S rRNA m(2)G1516 methyltransferase, SAM‑dependent
RA	3,642,361	T→A	7.9%	intergenic (+30/+19)	dtpB → / ← rsmJ	dipeptide and tripeptide permease B/16S rRNA m(2)G1516 methyltransferase, SAM‑dependent
RA	3,657,599	T→A	5.7%	intergenic (+32/+387)	hdeD → / ← arrS	acid‑resistance membrane protein/antisense sRNA ArrS, function unknown
RA	3,657,601	G→C	5.7%	intergenic (+34/+385)	hdeD → / ← arrS	acid‑resistance membrane protein/antisense sRNA ArrS, function unknown
RA	3,657,603	T→A	5.8%	intergenic (+36/+383)	hdeD → / ← arrS	acid‑resistance membrane protein/antisense sRNA ArrS, function unknown
RA	3,658,002	C→T	6.5%	noncoding (53/69 nt)	arrS ←	antisense sRNA ArrS, function unknown
RA	3,658,003	C→G	6.4%	noncoding (52/69 nt)	arrS ←	antisense sRNA ArrS, function unknown
RA	3,658,004	A→G	6.4%	noncoding (51/69 nt)	arrS ←	antisense sRNA ArrS, function unknown
RA	3,659,467	A→C	5.5%	E79A (GAA→GCA) ‡	mdtE →	anaerobic multidrug efflux transporter, ArcA‑regulated
RA	3,659,468	A→C	5.2%	E79D (GAA→GAC) ‡	mdtE →	anaerobic multidrug efflux transporter, ArcA‑regulated
RA	3,659,469	G→T	5.5%	G80C (GGC→TGC) ‡	mdtE →	anaerobic multidrug efflux transporter, ArcA‑regulated
RA	3,659,470	G→T	5.5%	G80V (GGC→GTC) ‡	mdtE →	anaerobic multidrug efflux transporter, ArcA‑regulated
RA	3,661,889	G→C	5.6%	L492L (CTG→CTC)	mdtF →	anaerobic multidrug efflux transporter, ArcA‑regulated
RA	3,663,547	T→C	8.6%	intergenic (+20/+343)	mdtF → / ← gadW	anaerobic multidrug efflux transporter, ArcA‑regulated/transcriptional activator of gadA and gadBC; repressor of gadX
RA	3,663,553	A→C	8.1%	intergenic (+26/+337)	mdtF → / ← gadW	anaerobic multidrug efflux transporter, ArcA‑regulated/transcriptional activator of gadA and gadBC; repressor of gadX
RA	3,663,555	G→T	10.5%	intergenic (+28/+335)	mdtF → / ← gadW	anaerobic multidrug efflux transporter, ArcA‑regulated/transcriptional activator of gadA and gadBC; repressor of gadX
RA	3,663,556	A→C	8.3%	intergenic (+29/+334)	mdtF → / ← gadW	anaerobic multidrug efflux transporter, ArcA‑regulated/transcriptional activator of gadA and gadBC; repressor of gadX
RA	3,663,558	G→T	8.4%	intergenic (+31/+332)	mdtF → / ← gadW	anaerobic multidrug efflux transporter, ArcA‑regulated/transcriptional activator of gadA and gadBC; repressor of gadX
RA	3,663,564	G→A	8.3%	intergenic (+37/+326)	mdtF → / ← gadW	anaerobic multidrug efflux transporter, ArcA‑regulated/transcriptional activator of gadA and gadBC; repressor of gadX
RA	3,676,271	A→T	7.6%	intergenic (+163/+19)	yhjE → / ← yhjG	putative MFS transporter; membrane protein/putative inner membrane‑anchored periplasmic AsmA family protein
RA	3,681,132	A→G	6.3%	V270A (GTG→GCG) ‡	yhjJ ←	putative periplasmic M16 family chaperone
RA	3,681,133	C→G	6.1%	V270L (GTG→CTG) ‡	yhjJ ←	putative periplasmic M16 family chaperone
RA	3,681,134	C→T	6.5%	A269A (GCG→GCA)	yhjJ ←	putative periplasmic M16 family chaperone
RA	3,700,416	T→C	5.3%	intergenic (+215/‑147)	rdlD → / → yhjV	sRNA antisense regulator affects LdrD translation; proposed addiction module in LDR‑D repeat, with toxic peptide LdrD/putative transporter
RA	3,700,418	G→A	5.1%	intergenic (+217/‑145)	rdlD → / → yhjV	sRNA antisense regulator affects LdrD translation; proposed addiction module in LDR‑D repeat, with toxic peptide LdrD/putative transporter
RA	3,700,419	T→C	5.2%	intergenic (+218/‑144)	rdlD → / → yhjV	sRNA antisense regulator affects LdrD translation; proposed addiction module in LDR‑D repeat, with toxic peptide LdrD/putative transporter
RA	3,700,421	G→A	6.2%	intergenic (+220/‑142)	rdlD → / → yhjV	sRNA antisense regulator affects LdrD translation; proposed addiction module in LDR‑D repeat, with toxic peptide LdrD/putative transporter
RA	3,701,840	A→G	6.7%	intergenic (+6/+24)	yhjV → / ← dppF	putative transporter/dipeptide/heme ABC transporter ATPas
RA	3,701,843	Δ1 bp	6.7%	intergenic (+9/+21)	yhjV → / ← dppF	putative transporter/dipeptide/heme ABC transporter ATPas
RA	3,701,847:1	+C	6.5%	intergenic (+13/+17)	yhjV → / ← dppF	putative transporter/dipeptide/heme ABC transporter ATPas
RA	3,701,850	C→T	6.6%	intergenic (+16/+14)	yhjV → / ← dppF	putative transporter/dipeptide/heme ABC transporter ATPas
RA	3,702,835	G→A	9.9%	L12L (CTG→TTG)	dppF ←	dipeptide/heme ABC transporter ATPas
RA	3,702,837	G→C	10.2%	P11R (CCG→CGG)	dppF ←	dipeptide/heme ABC transporter ATPas
RA	3,702,839	T→C	10.3%	Q10Q (CAA→CAG)	dppF ←	dipeptide/heme ABC transporter ATPas
RA	3,716,507	A→G	5.1%	intergenic (‑113/‑40)	bisC ← / → yiaD	biotin sulfoxide reductase/multicopy suppressor of bamB; outer membrane lipoprotein
RA	3,716,508	A→T	5.6%	intergenic (‑114/‑39)	bisC ← / → yiaD	biotin sulfoxide reductase/multicopy suppressor of bamB; outer membrane lipoprotein
RA	3,716,509	C→T	5.2%	intergenic (‑115/‑38)	bisC ← / → yiaD	biotin sulfoxide reductase/multicopy suppressor of bamB; outer membrane lipoprotein
RA	3,719,803	A→T	5.7%	intergenic (+35/‑246)	yiaG → / → cspA	HTH_CROC1 family putative transcriptional regulator/RNA chaperone and antiterminator, cold‑inducible
RA	3,719,804	T→C	5.7%	intergenic (+36/‑245)	yiaG → / → cspA	HTH_CROC1 family putative transcriptional regulator/RNA chaperone and antiterminator, cold‑inducible
RA	3,719,805	G→A	5.7%	intergenic (+37/‑244)	yiaG → / → cspA	HTH_CROC1 family putative transcriptional regulator/RNA chaperone and antiterminator, cold‑inducible
RA	3,719,806	A→T	5.6%	intergenic (+38/‑243)	yiaG → / → cspA	HTH_CROC1 family putative transcriptional regulator/RNA chaperone and antiterminator, cold‑inducible
RA	3,722,300	G→T	8.2%	intergenic (+195/+28)	sokA → / ← glyS	pseudogene, sRNA antisense regulator blocking mokA/hokA translation/glycine tRNA synthetase, beta subunit
RA	3,722,301	A→C	7.5%	intergenic (+196/+27)	sokA → / ← glyS	pseudogene, sRNA antisense regulator blocking mokA/hokA translation/glycine tRNA synthetase, beta subunit
RA	3,729,658	C→A	7.2%	A370S (GCA→TCA)	xylA ←	D‑xylose isomerase
RA	3,736,218	G→T	5.9%	intergenic (+61/+135)	xylR → / ← bax	xylose divergent operon transcriptional activator/putative glucosaminidase
RA	3,736,322	G→T	7.7%	intergenic (+165/+31)	xylR → / ← bax	xylose divergent operon transcriptional activator/putative glucosaminidase
RA	3,736,323	A→G	7.7%	intergenic (+166/+30)	xylR → / ← bax	xylose divergent operon transcriptional activator/putative glucosaminidase
RA	3,736,324	C→T	7.6%	intergenic (+167/+29)	xylR → / ← bax	xylose divergent operon transcriptional activator/putative glucosaminidase
RA	3,736,325	A→C	7.6%	intergenic (+168/+28)	xylR → / ← bax	xylose divergent operon transcriptional activator/putative glucosaminidase
RA	3,747,168:1	+C	6.5%	coding (85/1497 nt)	lyxK →	L‑xylulose kinase
RA	3,747,173	Δ1 bp	6.5%	coding (90/1497 nt)	lyxK →	L‑xylulose kinase
RA	3,756,564	T→A	8.8%	intergenic (‑53/+112)	aldB ← / ← yiaY	aldehyde dehydrogenase B/L‑threonine dehydrogenase
RA	3,774,214	C→T	5.0%	intergenic (+20/‑210)	mtlA → / → mtlD	mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent
RA	3,790,300	A→T	9.2%	intergenic (‑219/+20)	waaH ← / ← tdh	LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding
RA	3,790,303	A→T	8.1%	intergenic (‑222/+17)	waaH ← / ← tdh	LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding
RA	3,792,765	C→T	7.5%	intergenic (‑214/+61)	kbl ← / ← yibB	glycine C‑acetyltransferase/YibB family protein, function unknown
RA	3,792,766	A→T	7.6%	intergenic (‑215/+60)	kbl ← / ← yibB	glycine C‑acetyltransferase/YibB family protein, function unknown
RA	3,792,767	A→T	8.3%	intergenic (‑216/+59)	kbl ← / ← yibB	glycine C‑acetyltransferase/YibB family protein, function unknown
RA	3,792,768	A→G	7.6%	intergenic (‑217/+58)	kbl ← / ← yibB	glycine C‑acetyltransferase/YibB family protein, function unknown
RA	3,810,321	T→C	5.4%	intergenic (+17/+22)	coaD → / ← mutM	pantetheine‑phosphate adenylyltransferase/formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase
RA	3,811,212	C→T	5.7%	intergenic (‑60/+38)	mutM ← / ← rpmG	formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase/50S ribosomal subunit protein L33
RA	3,811,216	C→T	5.6%	intergenic (‑64/+34)	mutM ← / ← rpmG	formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase/50S ribosomal subunit protein L33
RA	3,811,217	G→C	5.2%	intergenic (‑65/+33)	mutM ← / ← rpmG	formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase/50S ribosomal subunit protein L33
RA	3,811,218	G→C	5.5%	intergenic (‑66/+32)	mutM ← / ← rpmG	formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase/50S ribosomal subunit protein L33
RA	3,811,219	A→G	5.3%	intergenic (‑67/+31)	mutM ← / ← rpmG	formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase/50S ribosomal subunit protein L33
RA	3,811,223	A→G	5.3%	intergenic (‑71/+27)	mutM ← / ← rpmG	formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase/50S ribosomal subunit protein L33
RA	3,814,164	G→A	12.0%	G78D (GGT→GAT)	dut →	deoxyuridinetriphosphatase
RA	3,814,167	T→C	11.5%	I79T (ATC→ACC)	dut →	deoxyuridinetriphosphatase
RA	3,817,940	T→A	6.6%	F61I (TTC→ATC)	dinD →	DNA damage‑inducible protein
RA	3,817,948	G→T	6.7%	E63D (GAG→GAT)	dinD →	DNA damage‑inducible protein
RA	3,817,949	A→C	6.6%	I64L (ATC→CTC)	dinD →	DNA damage‑inducible protein
RA	3,817,957	T→A	5.8%	D66E (GAT→GAA)	dinD →	DNA damage‑inducible protein
RA	3,819,810	A→T	9.3%	L454* (TTA→TAA)	ligB ←	DNA ligase, NAD(+)‑dependent
RA	3,828,809	Δ1 bp	16.4%	intergenic (‑144/‑136)	gltS ← / → xanP	glutamate transporter/xanthine permease
RA	3,832,188	A→T	7.8%	intergenic (+22/+31)	yicH → / ← yicI	putative inner membrane‑anchored periplasmic AsmA family protein/putative alpha‑glucosidase
RA	3,832,191	C→G	7.8%	intergenic (+25/+28)	yicH → / ← yicI	putative inner membrane‑anchored periplasmic AsmA family protein/putative alpha‑glucosidase
RA	3,877,594	C→A	5.4%	intergenic (‑129/+111)	yidB ← / ← gyrB	DUF937 family protein/DNA gyrase, subunit B
RA	3,877,600	G→T	7.1%	intergenic (‑135/+105)	yidB ← / ← gyrB	DUF937 family protein/DNA gyrase, subunit B
RA	3,877,635	C→A	14.9%	intergenic (‑170/+70)	yidB ← / ← gyrB	DUF937 family protein/DNA gyrase, subunit B
RA	3,878,894	T→A	6.9%	D409V (GAC→GTC)	gyrB ←	DNA gyrase, subunit B
RA	3,885,299	G→C	5.2%	R75P (CGT→CCT) ‡	yidC →	membrane protein insertase
RA	3,885,300	T→G	5.8%	R75R (CGT→CGG) ‡	yidC →	membrane protein insertase
RA	3,885,305	G→T	5.2%	G77V (GGT→GTT)	yidC →	membrane protein insertase
RA	3,888,219	T→A	5.5%	intergenic (+27/‑216)	mnmE → / → tnaC	tRNA U34 5‑methylaminomethyl‑2‑thiouridine modification GTPase/tryptophanase leader peptide
JC JC	3,890,075	IS5 (–) +4 bp	100%	coding (1346‑1349/1416 nt)	tnaA →	tryptophanase/L‑cysteine desulfhydrase, PLP‑dependent
RA	3,891,504	T→A	5.3%	intergenic (+21/‑111)	tnaB → / → mdtL	tryptophan transporter of low affinity/multidrug efflux system protein
RA	3,896,350	G→T	7.2%	A87E (GCA→GAA) ‡	adeP ←	adenine permease, high affinity; adenine:H+ symporter
RA	3,896,351	C→G	7.3%	A87P (GCA→CCA) ‡	adeP ←	adenine permease, high affinity; adenine:H+ symporter
RA	3,896,352	A→C	7.3%	V86V (GTT→GTG)	adeP ←	adenine permease, high affinity; adenine:H+ symporter
RA	3,900,542	A→T	5.5%	I12I (ATT→ATA)	yieL ←	putative xylanase
RA	3,900,545	A→T	5.2%	A11A (GCT→GCA)	yieL ←	putative xylanase
RA	3,908,506	C→G	6.1%	intergenic (‑140/+43)	pstB ← / ← pstA	phosphate ABC transporter ATPase/phosphate ABC transporter permease
RA	3,918,291	C→T	6.0%	intergenic (‑26/+25)	atpG ← / ← atpA	F1 sector of membrane‑bound ATP synthase, gamma subunit/F1 sector of membrane‑bound ATP synthase, alpha subunit
RA	3,918,296	C→T	6.1%	intergenic (‑31/+20)	atpG ← / ← atpA	F1 sector of membrane‑bound ATP synthase, gamma subunit/F1 sector of membrane‑bound ATP synthase, alpha subunit
RA	3,918,299	A→G	6.2%	intergenic (‑34/+17)	atpG ← / ← atpA	F1 sector of membrane‑bound ATP synthase, gamma subunit/F1 sector of membrane‑bound ATP synthase, alpha subunit
RA	3,918,304	A→G	5.3%	intergenic (‑39/+12)	atpG ← / ← atpA	F1 sector of membrane‑bound ATP synthase, gamma subunit/F1 sector of membrane‑bound ATP synthase, alpha subunit
RA	3,923,376	A→G	7.4%	V102A (GTG→GCG) ‡	rsmG ←	16S rRNA m(7)G527 methyltransferase, SAM‑dependent; glucose‑inhibited cell‑division protein
RA	3,923,377	C→T	7.5%	V102M (GTG→ATG) ‡	rsmG ←	16S rRNA m(7)G527 methyltransferase, SAM‑dependent; glucose‑inhibited cell‑division protein
RA	3,923,717	G→A	8.1%	intergenic (‑37/+27)	rsmG ← / ← mnmG	16S rRNA m(7)G527 methyltransferase, SAM‑dependent; glucose‑inhibited cell‑division protein/5‑methylaminomethyl‑2‑thiouridine modification at tRNA U34
RA	3,923,718	G→C	7.9%	intergenic (‑38/+26)	rsmG ← / ← mnmG	16S rRNA m(7)G527 methyltransferase, SAM‑dependent; glucose‑inhibited cell‑division protein/5‑methylaminomethyl‑2‑thiouridine modification at tRNA U34
RA	3,923,719	G→C	8.9%	intergenic (‑39/+25)	rsmG ← / ← mnmG	16S rRNA m(7)G527 methyltransferase, SAM‑dependent; glucose‑inhibited cell‑division protein/5‑methylaminomethyl‑2‑thiouridine modification at tRNA U34
RA	3,923,720	T→C	7.8%	intergenic (‑40/+24)	rsmG ← / ← mnmG	16S rRNA m(7)G527 methyltransferase, SAM‑dependent; glucose‑inhibited cell‑division protein/5‑methylaminomethyl‑2‑thiouridine modification at tRNA U34
RA	3,927,123	A→T	10.2%	intergenic (‑120/‑32)	asnC ← / → asnA	transcriptional activator of asnA; autorepressor/asparagine synthetase A
RA	3,927,124	T→G	8.8%	intergenic (‑121/‑31)	asnC ← / → asnA	transcriptional activator of asnA; autorepressor/asparagine synthetase A
RA	3,927,125	C→A	8.7%	intergenic (‑122/‑30)	asnC ← / → asnA	transcriptional activator of asnA; autorepressor/asparagine synthetase A
RA	3,927,126	A→T	8.5%	intergenic (‑123/‑29)	asnC ← / → asnA	transcriptional activator of asnA; autorepressor/asparagine synthetase A
RA	3,928,701	A→C	8.5%	R301R (CGT→CGG)	viaA ←	stimulator of RavA ATPase activity; von Willebrand factor domain protein
RA	3,928,800	T→A	5.6%	E268D (GAA→GAT)	viaA ←	stimulator of RavA ATPase activity; von Willebrand factor domain protein
RA	3,947,332	A→T	9.8%	A212A (GCT→GCA)	hdfR ←	flhDC operon transcriptional repressor
RA	3,947,335	A→T	10.1%	S211S (TCT→TCA)	hdfR ←	flhDC operon transcriptional repressor
RA	3,959,515	T→A	6.3%	intergenic (+70/+17)	ilvC → / ← ppiC	ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C)
RA	3,959,924	A→T	6.6%	intergenic (‑111/+88)	ppiC ← / ← yifN	peptidyl‑prolyl cis‑trans isomerase C (rotamase C)/PemK toxin family pseudogene
RA	3,959,925	A→T	5.9%	intergenic (‑112/+87)	ppiC ← / ← yifN	peptidyl‑prolyl cis‑trans isomerase C (rotamase C)/PemK toxin family pseudogene
RA	3,959,926	A→T	5.5%	intergenic (‑113/+86)	ppiC ← / ← yifN	peptidyl‑prolyl cis‑trans isomerase C (rotamase C)/PemK toxin family pseudogene
RA	3,961,254	T→A	7.8%	L193Q (CTG→CAG)	rep →	DNA helicase and single‑stranded DNA‑dependent ATPase
RA	3,961,257	T→A	8.9%	L194Q (CTG→CAG)	rep →	DNA helicase and single‑stranded DNA‑dependent ATPase
RA	3,963,415	A→C	8.1%	L272R (CTG→CGG)	gpp ←	guanosine pentaphosphatase/exopolyphosphatase
RA	3,965,398	G→C	5.3%	A78G (GCC→GGC)	rhlB ←	ATP‑dependent RNA helicase
RA	3,966,768	G→T	6.3%	E118* (GAA→TAA)	rho →	transcription termination factor
RA	3,967,704	G→A	6.8%	intergenic (+28/‑212)	rho → / → wecA	transcription termination factor/UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
RA	3,967,705	T→A	6.9%	intergenic (+29/‑211)	rho → / → wecA	transcription termination factor/UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
RA	3,967,706	T→A	6.4%	intergenic (+30/‑210)	rho → / → wecA	transcription termination factor/UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
RA	3,967,707	T→C	6.8%	intergenic (+31/‑209)	rho → / → wecA	transcription termination factor/UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase
RA	3,973,858	A→C	8.3%	D84A (GAC→GCC)	rffH →	glucose‑1‑phosphate thymidylyltransferase
RA	3,976,402	A→T	6.6%	N42I (AAT→ATT)	wzxE →	O‑antigen translocase
RA	3,978,113	G→A	6.4%	E197K (GAG→AAG) ‡	wecF →	TDP‑Fuc4NAc:lipidIIFuc4NAc transferase
RA	3,978,114	A→T	6.4%	E197V (GAG→GTG) ‡	wecF →	TDP‑Fuc4NAc:lipidIIFuc4NAc transferase
RA	3,978,117	A→T	6.2%	H198L (CAT→CTT) ‡	wecF →	TDP‑Fuc4NAc:lipidIIFuc4NAc transferase
RA	3,978,118	T→C	6.2%	H198H (CAT→CAC) ‡	wecF →	TDP‑Fuc4NAc:lipidIIFuc4NAc transferase
RA	3,987,174	C→G	8.4%	D237H (GAT→CAT)	hemY ←	putative protoheme IX synthesis protein
RA	3,987,175	C→G	8.4%	M236I (ATG→ATC)	hemY ←	putative protoheme IX synthesis protein
RA	4,000,230	A→G	5.1%	intergenic (+85/+62)	uvrD → / ← yigE	DNA‑dependent ATPase I and helicase II/DUF2233 family protein
RA	4,000,231	G→C	6.0%	intergenic (+86/+61)	uvrD → / ← yigE	DNA‑dependent ATPase I and helicase II/DUF2233 family protein
RA	4,000,237	T→A	5.4%	intergenic (+92/+55)	uvrD → / ← yigE	DNA‑dependent ATPase I and helicase II/DUF2233 family protein
RA	4,000,238	T→A	5.9%	intergenic (+93/+54)	uvrD → / ← yigE	DNA‑dependent ATPase I and helicase II/DUF2233 family protein
RA	4,000,244	G→C	5.8%	intergenic (+99/+48)	uvrD → / ← yigE	DNA‑dependent ATPase I and helicase II/DUF2233 family protein
RA	4,000,245	C→T	5.6%	intergenic (+100/+47)	uvrD → / ← yigE	DNA‑dependent ATPase I and helicase II/DUF2233 family protein
RA	4,009,002	G→T	5.4%	P20T (CCA→ACA)	rhtB ←	homoserine, homoserine lactone and S‑methyl‑methionine efflux pump
RA	4,009,005	A→C	6.0%	S19A (TCG→GCG)	rhtB ←	homoserine, homoserine lactone and S‑methyl‑methionine efflux pump
RA	4,017,216:1	+A	5.9%	intergenic (+24/‑117)	udp → / → rmuC	uridine phosphorylase/DNA recombination protein
RA	4,017,222	Δ1 bp	6.4%	intergenic (+30/‑111)	udp → / → rmuC	uridine phosphorylase/DNA recombination protein
RA	4,046,782	G→T	6.2%	intergenic (‑180/‑184)	yihG ← / → polA	inner membrane protein, inner membrane acyltransferase/5' to 3' DNA polymerase and 3' to 5'/5' to 3' exonuclease
RA	4,046,784	A→T	6.4%	intergenic (‑182/‑182)	yihG ← / → polA	inner membrane protein, inner membrane acyltransferase/5' to 3' DNA polymerase and 3' to 5'/5' to 3' exonuclease
RA	4,046,785	A→T	5.9%	intergenic (‑183/‑181)	yihG ← / → polA	inner membrane protein, inner membrane acyltransferase/5' to 3' DNA polymerase and 3' to 5'/5' to 3' exonuclease
RA	4,046,787	A→C	5.6%	intergenic (‑185/‑179)	yihG ← / → polA	inner membrane protein, inner membrane acyltransferase/5' to 3' DNA polymerase and 3' to 5'/5' to 3' exonuclease
RA	4,049,986	G→T	7.2%	noncoding (88/109 nt)	spf →	Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent
RA	4,049,989	A→C	6.8%	noncoding (91/109 nt)	spf →	Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent
RA	4,050,224	A→G	6.1%	L181S (TTG→TCG) ‡	yihA ←	cell division GTP‑binding protein
RA	4,050,225	A→T	6.7%	L181M (TTG→ATG) ‡	yihA ←	cell division GTP‑binding protein
RA	4,050,226	C→T	6.0%	S180S (TCG→TCA)	yihA ←	cell division GTP‑binding protein
RA	4,058,230	G→T	5.8%	intergenic (‑196/‑177)	glnA ← / → typA	glutamine synthetase/GTP‑binding protein
RA	4,058,232	A→T	5.2%	intergenic (‑198/‑175)	glnA ← / → typA	glutamine synthetase/GTP‑binding protein
RA	4,058,620	A→G	7.6%	I72V (ATC→GTC) ‡	typA →	GTP‑binding protein
RA	4,058,621	T→A	7.5%	I72N (ATC→AAC) ‡	typA →	GTP‑binding protein
RA	4,058,622	C→T	7.5%	I72I (ATC→ATT) ‡	typA →	GTP‑binding protein
RA	4,060,261	G→T	14.6%	intergenic (+31/‑186)	typA → / → yihL	GTP‑binding protein/putative DNA‑binding transcriptional regulator
RA	4,060,264	A→C	14.7%	intergenic (+34/‑183)	typA → / → yihL	GTP‑binding protein/putative DNA‑binding transcriptional regulator
RA	4,070,469	A→C	9.4%	intergenic (‑68/+46)	yihR ← / ← yihS	putative sulphoquinovose mutarotase/sulphoquinovose isomerase
RA	4,080,027	G→A	5.1%	intergenic (+58/+272)	yiiF → / ← fdhE	putative thymol sensitivity protein, CopG family putative transcriptional regulator/formate dehydrogenase formation protein
RA	4,080,028	C→A	5.5%	intergenic (+59/+271)	yiiF → / ← fdhE	putative thymol sensitivity protein, CopG family putative transcriptional regulator/formate dehydrogenase formation protein
RA	4,082,696	G→C	7.6%	Q22E (CAG→GAG)	fdoH ←	formate dehydrogenase‑O, Fe‑S subunit
RA	4,086,965	G→T	17.9%	intergenic (+116/‑37)	fdhD → / → yiiG	formate dehydrogenase formation protein/DUF3829 family lipoprotein
RA	4,086,993	G→T	14.1%	intergenic (+144/‑9)	fdhD → / → yiiG	formate dehydrogenase formation protein/DUF3829 family lipoprotein
RA	4,088,091	G→C	9.3%	intergenic (+34/+16)	yiiG → / ← frvR	DUF3829 family lipoprotein/putative frv operon regulator; contains a PTS EIIA domain
RA	4,097,357	G→C	6.4%	T31R (ACG→AGG)	rhaB ←	rhamnulokinase
RA	4,097,359	C→G	6.4%	L30L (CTG→CTC) ‡	rhaB ←	rhamnulokinase
RA	4,097,361	G→C	6.5%	L30V (CTG→GTG) ‡	rhaB ←	rhamnulokinase
RA	4,113,473	T→C	7.8%	L61L (TTG→CTG) ‡	uspD →	stress‑induced protein
RA	4,113,474	T→A	8.0%	L61* (TTG→TAG) ‡	uspD →	stress‑induced protein
RA	4,113,475	G→A	7.8%	L61L (TTG→TTA) ‡	uspD →	stress‑induced protein
RA	4,127,251	C→T	5.7%	intergenic (+26/+35)	rpmE → / ← yiiX	50S ribosomal subunit protein L31/putative lipid binding hydrolase, DUF830 family protein
RA	4,127,252	A→G	5.7%	intergenic (+27/+34)	rpmE → / ← yiiX	50S ribosomal subunit protein L31/putative lipid binding hydrolase, DUF830 family protein
RA	4,130,005	G→A	6.8%	L57L (TTG→TTA)	metL →	Bifunctional aspartokinase/homoserine dehydrogenase 2
RA	4,130,008	T→C	6.8%	I58I (ATT→ATC)	metL →	Bifunctional aspartokinase/homoserine dehydrogenase 2
RA	4,136,048	T→C	6.1%	intergenic (+33/‑60)	katG → / → yijE	catalase‑peroxidase HPI, heme b‑containing/EamA‑like transporter family protein
RA	4,140,698	C→A	5.0%	M508I (ATG→ATT)	frwA ←	putative PTS enzyme: Hpr, enzyme I and II components
RA	4,141,379	G→C	6.4%	L281L (CTC→CTG) ‡	frwA ←	putative PTS enzyme: Hpr, enzyme I and II components
RA	4,141,380	A→T	6.6%	L281H (CTC→CAC) ‡	frwA ←	putative PTS enzyme: Hpr, enzyme I and II components
RA	4,141,381	G→C	6.7%	L281V (CTC→GTC) ‡	frwA ←	putative PTS enzyme: Hpr, enzyme I and II components
RA	4,148,049	C→G	5.5%	G90A (GGC→GCC)	yijO ←	AraC family putative transcriptional activator
RA	4,177,171	T→A	8.0%	intergenic (+43/‑187)	tufB → / → secE	translation elongation factor EF‑Tu 2/preprotein translocase membrane subunit
RA	4,177,172	T→A	7.8%	intergenic (+44/‑186)	tufB → / → secE	translation elongation factor EF‑Tu 2/preprotein translocase membrane subunit
RA	4,185,907	G→T	7.6%	Q186H (CAG→CAT)	rpoC →	RNA polymerase, beta prime subunit
RA	4,185,913	G→T	7.7%	L188L (CTG→CTT)	rpoC →	RNA polymerase, beta prime subunit
RA	4,185,915	T→A	7.7%	L189Q (CTG→CAG)	rpoC →	RNA polymerase, beta prime subunit
RA	4,185,917	A→C	8.3%	K190Q (AAG→CAG)	rpoC →	RNA polymerase, beta prime subunit
RA	4,185,923	A→C	7.7%	M192L (ATG→CTG)	rpoC →	RNA polymerase, beta prime subunit
RA	4,201,799	C→T	5.5%	intergenic (‑111/‑127)	zraP ← / → zraS	Zn‑dependent periplasmic chaperone/sensory histidine kinase in two‑component regulatory system with ZraR
RA	4,201,800	T→A	5.4%	intergenic (‑112/‑126)	zraP ← / → zraS	Zn‑dependent periplasmic chaperone/sensory histidine kinase in two‑component regulatory system with ZraR
RA	4,201,801	G→C	5.5%	intergenic (‑113/‑125)	zraP ← / → zraS	Zn‑dependent periplasmic chaperone/sensory histidine kinase in two‑component regulatory system with ZraR
RA	4,201,803	T→C	5.5%	intergenic (‑115/‑123)	zraP ← / → zraS	Zn‑dependent periplasmic chaperone/sensory histidine kinase in two‑component regulatory system with ZraR
RA	4,201,806	G→A	5.1%	intergenic (‑118/‑120)	zraP ← / → zraS	Zn‑dependent periplasmic chaperone/sensory histidine kinase in two‑component regulatory system with ZraR
RA	4,201,808	G→C	5.2%	intergenic (‑120/‑118)	zraP ← / → zraS	Zn‑dependent periplasmic chaperone/sensory histidine kinase in two‑component regulatory system with ZraR
RA	4,201,809	T→A	5.2%	intergenic (‑121/‑117)	zraP ← / → zraS	Zn‑dependent periplasmic chaperone/sensory histidine kinase in two‑component regulatory system with ZraR
RA	4,201,810	A→G	5.1%	intergenic (‑122/‑116)	zraP ← / → zraS	Zn‑dependent periplasmic chaperone/sensory histidine kinase in two‑component regulatory system with ZraR
RA	4,207,576	A→G	7.2%	intergenic (‑44/‑571)	purH ← / → rrsE	IMP cyclohydrolase and phosphoribosylaminoimidazolecarboxamide formyltransferase/16S ribosomal RNA of rrnE operon
RA	4,207,591	C→T	7.1%	intergenic (‑59/‑556)	purH ← / → rrsE	IMP cyclohydrolase and phosphoribosylaminoimidazolecarboxamide formyltransferase/16S ribosomal RNA of rrnE operon
RA	4,218,454	T→G	5.1%	intergenic (+41/‑142)	aceA → / → aceK	isocitrate lyase/isocitrate dehydrogenase kinase/phosphatase
RA	4,220,007	T→G	21.7%	V471G (GTG→GGG)	aceK →	isocitrate dehydrogenase kinase/phosphatase
RA	4,225,316	A→C	5.0%	K497Q (AAA→CAA)	metH →	homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent
RA	4,226,224	T→G	5.4%	D799E (GAT→GAG)	metH →	homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent
RA	4,227,550	G→A	5.9%	intergenic (+39/‑181)	metH → / → yjbB	homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent/putative Na+/Pi‑cotransporter
RA	4,227,555	A→T	6.2%	intergenic (+44/‑176)	metH → / → yjbB	homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent/putative Na+/Pi‑cotransporter
RA	4,227,560	T→C	5.6%	intergenic (+49/‑171)	metH → / → yjbB	homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent/putative Na+/Pi‑cotransporter
RA	4,229,433:1	+G	5.0%	intergenic (+71/+20)	yjbB → / ← pepE	putative Na+/Pi‑cotransporter/peptidase E, alpha‑aspartyl dipeptidase
RA	4,229,438	Δ1 bp	5.1%	intergenic (+76/+15)	yjbB → / ← pepE	putative Na+/Pi‑cotransporter/peptidase E, alpha‑aspartyl dipeptidase
RA	4,235,579	G→A	5.8%	intergenic (+172/‑327)	pgi → / → yjbE	glucosephosphate isomerase/extracellular polysaccharide production threonine‑rich protein
RA	4,235,581	T→A	5.3%	intergenic (+174/‑325)	pgi → / → yjbE	glucosephosphate isomerase/extracellular polysaccharide production threonine‑rich protein
RA	4,235,583	T→C	5.7%	intergenic (+176/‑323)	pgi → / → yjbE	glucosephosphate isomerase/extracellular polysaccharide production threonine‑rich protein
RA	4,236,296	T→A	9.0%	L12* (TTA→TAA)	yjbF →	extracellular polysaccharide production lipoprotein
RA	4,236,299	T→A	9.4%	L13* (TTA→TAA)	yjbF →	extracellular polysaccharide production lipoprotein
RA	4,242,546	G→A	7.9%	intergenic (‑292/+80)	xylE ← / ← malG	D‑xylose transporter/maltose transporter subunit
RA	4,242,547	T→C	8.1%	intergenic (‑293/+79)	xylE ← / ← malG	D‑xylose transporter/maltose transporter subunit
RA	4,245,108	T→G	5.1%	intergenic (‑33/+121)	malF ← / ← malE	maltose transporter subunit/maltose transporter subunit
RA	4,245,110	T→G	6.1%	intergenic (‑35/+119)	malF ← / ← malE	maltose transporter subunit/maltose transporter subunit
RA	4,245,111	C→A	5.5%	intergenic (‑36/+118)	malF ← / ← malE	maltose transporter subunit/maltose transporter subunit
RA	4,261,358	T→A	8.2%	intergenic (+52/‑311)	yjbM → / → dusA	uncharacterized protein/tRNA‑dihydrouridine synthase A
RA	4,261,359	T→A	8.4%	intergenic (+53/‑310)	yjbM → / → dusA	uncharacterized protein/tRNA‑dihydrouridine synthase A
RA	4,262,255	G→C	6.4%	S196T (AGC→ACC)	dusA →	tRNA‑dihydrouridine synthase A
RA	4,263,306	C→G	5.4%	R309P (CGT→CCT) ‡	qorA ←	quinone oxidoreductase, NADPH‑dependent
RA	4,263,307	G→C	5.4%	R309G (CGT→GGT) ‡	qorA ←	quinone oxidoreductase, NADPH‑dependent
RA	4,263,308	C→G	5.4%	Q308H (CAG→CAC)	qorA ←	quinone oxidoreductase, NADPH‑dependent
RA	4,270,144	G→C	9.6%	intergenic (+17/‑94)	aphA → / → yjbQ	acid phosphatase/phosphotransferase, class B, non‑specific/thiamine phosphate synthase
RA	4,274,742	T→A	5.2%	intergenic (+81/+18)	ssb → / ← yjcB	single‑stranded DNA‑binding protein/putative inner membrane protein
RA	4,283,228	T→G	23.0%	intergenic (‑153/+25)	yjcF ← / ← actP	pentapeptide repeats protein/acetate transporter
RA	4,291,512	G→A	11.0%	M1M (GTG→ATG) †‡	nrfE →	heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfE
RA	4,291,513	T→C	10.9%	M1A (GTG→GCG) †‡	nrfE →	heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfE
RA	4,295,956	C→A	7.0%	intergenic (+162/+480)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,295,964	A→T	7.4%	intergenic (+170/+472)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,296,060	C→T	31.1%	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	4,307,294	A→T	11.0%	L169Q (CTG→CAG)	alsK ←	D‑allose kinase
RA	4,307,298	G→A	11.1%	P168S (CCC→TCC)	alsK ←	D‑allose kinase
RA	4,314,233	A→T	5.4%	intergenic (+36/+111)	yjdP → / ← phnP	putative periplasmic protein/5‑phospho‑alpha‑D‑ribosyl 1,2‑cyclic phosphate phosphodiesterase
RA	4,315,438	A→T	5.0%	F34Y (TTT→TAT)	phnO ←	aminoalkylphosphonate N‑acetyltransferase
RA	4,317,977	A→G	5.1%	intergenic (‑82/+29)	phnL ← / ← phnK	ribophosphonate triphosphate synthase subunit; putative ABC transporter‑related ATPase/carbon‑phosphorus lyase complex subunit, putative ATP transporter ATP‑binding protein
RA	4,317,978	A→C	6.7%	intergenic (‑83/+28)	phnL ← / ← phnK	ribophosphonate triphosphate synthase subunit; putative ABC transporter‑related ATPase/carbon‑phosphorus lyase complex subunit, putative ATP transporter ATP‑binding protein
RA	4,325,281	G→C	9.4%	intergenic (‑116/+17)	phnC ← / ← yjdN	phosphonate ABC transporter ATPase/metalloprotein superfamily protein
RA	4,325,283	G→C	9.2%	intergenic (‑118/+15)	phnC ← / ← yjdN	phosphonate ABC transporter ATPase/metalloprotein superfamily protein
RA	4,325,285	G→C	10.2%	intergenic (‑120/+13)	phnC ← / ← yjdN	phosphonate ABC transporter ATPase/metalloprotein superfamily protein
RA	4,332,868	G→T	6.9%	R135R (CGC→CGA)	basS ←	sensory histidine kinase in two‑component regulatory system with BasR
RA	4,332,871	A→C	7.9%	S134R (AGT→AGG)	basS ←	sensory histidine kinase in two‑component regulatory system with BasR
RA	4,336,974	A→T	7.0%	S20T (TCG→ACG)	adiC ←	arginine:agmatine antiporter
RA	4,336,979	A→C	7.0%	M18R (ATG→AGG)	adiC ←	arginine:agmatine antiporter
RA	4,336,981	C→G	7.4%	L17L (CTG→CTC) ‡	adiC ←	arginine:agmatine antiporter
RA	4,336,983	G→T	7.3%	L17M (CTG→ATG) ‡	adiC ←	arginine:agmatine antiporter
RA	4,336,988	A→T	6.4%	V15D (GTC→GAC)	adiC ←	arginine:agmatine antiporter
RA	4,353,170	G→A	6.8%	intergenic (+89/+30)	ghoT → / ← lysU	toxin of GhoTS toxin‑antitoxin pair; membrane‑lytic protein; stimulator of persister cell formation/lysine tRNA synthetase, inducible
RA	4,353,171	C→G	6.9%	intergenic (+90/+29)	ghoT → / ← lysU	toxin of GhoTS toxin‑antitoxin pair; membrane‑lytic protein; stimulator of persister cell formation/lysine tRNA synthetase, inducible
RA	4,353,172	C→G	6.9%	intergenic (+91/+28)	ghoT → / ← lysU	toxin of GhoTS toxin‑antitoxin pair; membrane‑lytic protein; stimulator of persister cell formation/lysine tRNA synthetase, inducible
RA	4,353,173	T→C	7.0%	intergenic (+92/+27)	ghoT → / ← lysU	toxin of GhoTS toxin‑antitoxin pair; membrane‑lytic protein; stimulator of persister cell formation/lysine tRNA synthetase, inducible
RA	4,365,132	T→G	8.2%	A75A (GCA→GCC) ‡	cutA ←	divalent‑cation tolerance protein, copper sensitivity
RA	4,365,133	G→C	7.8%	A75G (GCA→GGA) ‡	cutA ←	divalent‑cation tolerance protein, copper sensitivity
RA	4,365,134	C→A	7.1%	A75S (GCA→TCA) ‡	cutA ←	divalent‑cation tolerance protein, copper sensitivity
RA	4,366,854	T→G	6.3%	intergenic (‑81/+37)	dcuA ← / ← aspA	C4‑dicarboxylate antiporter/aspartate ammonia‑lyase
RA	4,366,855	C→A	6.4%	intergenic (‑82/+36)	dcuA ← / ← aspA	C4‑dicarboxylate antiporter/aspartate ammonia‑lyase
RA	4,367,700	G→T	6.9%	L210M (CTG→ATG)	aspA ←	aspartate ammonia‑lyase
RA	4,376,710	T→C	5.0%	intergenic (+11/‑165)	ecnB → / → sugE	entericidin B membrane lipoprotein/multidrug efflux system protein
RA	4,376,819	A→T	5.1%	intergenic (+120/‑56)	ecnB → / → sugE	entericidin B membrane lipoprotein/multidrug efflux system protein
RA	4,377,791	A→T	6.4%	intergenic (‑69/+20)	blc ← / ← ampC	outer membrane lipoprotein cell division and growth lipocalin/penicillin‑binding protein; beta‑lactamase, intrinsically weak
RA	4,377,792	A→T	5.3%	intergenic (‑70/+19)	blc ← / ← ampC	outer membrane lipoprotein cell division and growth lipocalin/penicillin‑binding protein; beta‑lactamase, intrinsically weak
RA	4,378,857	G→A	5.4%	R30C (CGC→TGC)	ampC ←	penicillin‑binding protein; beta‑lactamase, intrinsically weak
RA	4,378,858	A→T	5.4%	H29Q (CAT→CAA) ‡	ampC ←	penicillin‑binding protein; beta‑lactamase, intrinsically weak
RA	4,378,859	T→C	5.5%	H29R (CAT→CGT) ‡	ampC ←	penicillin‑binding protein; beta‑lactamase, intrinsically weak
RA	4,378,977	T→A	10.0%	intergenic (‑33/+30)	ampC ← / ← frdD	penicillin‑binding protein; beta‑lactamase, intrinsically weak/fumarate reductase (anaerobic), membrane anchor subunit
RA	4,381,333	A→T	5.6%	L329Q (CTG→CAG)	frdA ←	anaerobic fumarate reductase catalytic and NAD/flavoprotein subunit
RA	4,381,335	A→C	5.4%	R328R (CGT→CGG)	frdA ←	anaerobic fumarate reductase catalytic and NAD/flavoprotein subunit
RA	4,383,867	T→C	8.0%	L10P (CTG→CCG) ‡	yjeM →	putative transporter
RA	4,383,868	G→T	7.1%	L10L (CTG→CTT) ‡	yjeM →	putative transporter
RA	4,383,871	A→C	7.0%	I11I (ATA→ATC)	yjeM →	putative transporter
RA	4,383,872	G→A	7.2%	G12R (GGA→AGA)	yjeM →	putative transporter
RA	4,386,126	C→T	5.0%	R1082H (CGT→CAT)	mscM ←	mechanosensitive channel protein, miniconductance
RA	4,386,129	A→G	5.0%	M1081T (ATG→ACG)	mscM ←	mechanosensitive channel protein, miniconductance
RA	4,390,401	C→A	8.3%	intergenic (‑41/+56)	psd ← / ← rsgA	phosphatidylserine decarboxylase/ribosome small subunit‑dependent GTPase A
RA	4,409,160	G→A	10.0%	intergenic (+65/‑115)	rnr → / → rlmB	exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
RA	4,409,161	C→A	10.0%	intergenic (+66/‑114)	rnr → / → rlmB	exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
RA	4,409,167	G→T	9.2%	intergenic (+72/‑108)	rnr → / → rlmB	exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
RA	4,409,168	A→C	10.4%	intergenic (+73/‑107)	rnr → / → rlmB	exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
RA	4,409,174	T→G	11.0%	intergenic (+79/‑101)	rnr → / → rlmB	exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
RA	4,409,175	T→C	10.8%	intergenic (+80/‑100)	rnr → / → rlmB	exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
RA	4,414,234	G→C	7.9%	intergenic (+43/‑41)	yjfC → / → aidB	ATP‑Grasp family ATPase/DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase
RA	4,414,240	A→T	7.7%	intergenic (+49/‑35)	yjfC → / → aidB	ATP‑Grasp family ATPase/DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase
RA	4,414,241	C→A	8.1%	intergenic (+50/‑34)	yjfC → / → aidB	ATP‑Grasp family ATPase/DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase
RA	4,414,242	T→G	8.2%	intergenic (+51/‑33)	yjfC → / → aidB	ATP‑Grasp family ATPase/DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase
RA	4,414,243	A→T	8.8%	intergenic (+52/‑32)	yjfC → / → aidB	ATP‑Grasp family ATPase/DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase
RA	4,414,249	G→C	8.1%	intergenic (+58/‑26)	yjfC → / → aidB	ATP‑Grasp family ATPase/DNA alkylation damage repair protein; flavin‑containing DNA binding protein, weak isovaleryl CoA dehydrogenase
RA	4,422,887	G→A	5.1%	A14A (GCG→GCA)	ulaE →	L‑xylulose 5‑phosphate 3‑epimerase
RA	4,422,895	C→G	6.5%	A17G (GCC→GGC)	ulaE →	L‑xylulose 5‑phosphate 3‑epimerase
RA	4,422,903	T→C	5.0%	C20R (TGC→CGC)	ulaE →	L‑xylulose 5‑phosphate 3‑epimerase
RA	4,425,286	G→A	11.3%	A57T (GCA→ACA)	rpsF →	30S ribosomal subunit protein S6
RA	4,426,592	T→A	6.6%	intergenic (+35/+36)	rplI → / ← yjfZ	50S ribosomal subunit protein L9/uncharacterized protein
RA	4,429,127	A→T	5.1%	I65F (ATC→TTC)	fklB →	FKBP‑type peptidyl‑prolyl cis‑trans isomerase (rotamase)
RA	4,457,196	A→G	6.3%	intergenic (+38/+118)	mpl → / ← yjgA	UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase/ribosome‑associated UPF0307 family protein
RA	4,457,197	A→C	6.4%	intergenic (+39/+117)	mpl → / ← yjgA	UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase/ribosome‑associated UPF0307 family protein
RA	4,457,203	T→G	6.4%	intergenic (+45/+111)	mpl → / ← yjgA	UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase/ribosome‑associated UPF0307 family protein
RA	4,457,204	C→A	6.7%	intergenic (+46/+110)	mpl → / ← yjgA	UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase/ribosome‑associated UPF0307 family protein
RA	4,457,210	G→T	5.0%	intergenic (+52/+104)	mpl → / ← yjgA	UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase/ribosome‑associated UPF0307 family protein
RA	4,460,477	A→C	5.0%	intergenic (‑113/+45)	nrdG ← / ← nrdD	anaerobic ribonucleotide reductase activating protein/anaerobic ribonucleoside‑triphosphate reductase
RA	4,464,329	A→T	6.9%	Y127* (TAT→TAA)	treC ←	trehalose‑6‑P hydrolase
RA	4,470,951	A→C	10.3%	intergenic (‑38/+35)	ridA ← / ← pyrI	enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit
RA	4,470,952	T→C	10.5%	intergenic (‑39/+34)	ridA ← / ← pyrI	enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit
RA	4,470,957	G→A	9.4%	intergenic (‑44/+29)	ridA ← / ← pyrI	enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit
RA	4,470,958	G→T	9.5%	intergenic (‑45/+28)	ridA ← / ← pyrI	enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit
RA	4,472,434	G→A	8.8%	R34* (CGA→TGA)	pyrL ←	pyrBI operon leader peptide
RA	4,472,437	T→C	8.6%	N33D (AAT→GAT)	pyrL ←	pyrBI operon leader peptide
RA	4,496,511	A→G	6.9%	intergenic (+22/‑164)	leuX → / → intB	tRNA‑Leu/pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase
RA	4,496,512	C→T	7.2%	intergenic (+23/‑163)	leuX → / → intB	tRNA‑Leu/pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase
RA	4,514,335	A→T	9.1%	intergenic (‑27/+18)	fecB ← / ← fecA	ferric citrate ABC transporter periplasmic binding protein/TonB‑dependent outer membrane ferric citrate transporter and signal transducer; ferric citrate extracelluar receptor; FecR‑interacting protein
RA	4,514,336	A→T	9.1%	intergenic (‑28/+17)	fecB ← / ← fecA	ferric citrate ABC transporter periplasmic binding protein/TonB‑dependent outer membrane ferric citrate transporter and signal transducer; ferric citrate extracelluar receptor; FecR‑interacting protein
RA	4,519,311	A→G	9.2%	intergenic (+87/+27)	insB1 → / ← yjhU	IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element
RA	4,519,313	C→A	10.3%	intergenic (+89/+25)	insB1 → / ← yjhU	IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element
RA	4,519,314	T→G	8.8%	intergenic (+90/+24)	insB1 → / ← yjhU	IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element
RA	4,519,316	C→T	9.1%	intergenic (+92/+22)	insB1 → / ← yjhU	IS1 transposase B;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related/putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element
RA	4,520,500	Δ1 bp	7.3%	intergenic (‑176/+171)	yjhU ← / ← yjhF	putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter
RA	4,520,504:1	+T	7.1%	intergenic (‑180/+167)	yjhU ← / ← yjhF	putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter
RA	4,532,534	G→C	6.1%	A217G (GCC→GGC)	yjhP ←	putative methyltransferase
RA	4,532,537	G→C	6.1%	A216G (GCC→GGC)	yjhP ←	putative methyltransferase
RA	4,537,639	T→G	8.1%	intergenic (‑45/+20)	nanS ← / ← nanM	9‑O‑acetyl N‑acetylneuraminic acid esterase/N‑acetylneuraminic acid mutarotase
RA	4,537,640	T→G	5.6%	intergenic (‑46/+19)	nanS ← / ← nanM	9‑O‑acetyl N‑acetylneuraminic acid esterase/N‑acetylneuraminic acid mutarotase
RA	4,537,643	C→A	6.3%	intergenic (‑49/+16)	nanS ← / ← nanM	9‑O‑acetyl N‑acetylneuraminic acid esterase/N‑acetylneuraminic acid mutarotase
RA	4,549,932	T→A	7.6%	intergenic (+222/+21)	fimH → / ← gntP	minor component of type 1 fimbriae/fructuronate transporter
RA	4,551,422	T→A	8.1%	intergenic (‑126/‑214)	gntP ← / → uxuA	fructuronate transporter/mannonate hydrolase
RA	4,566,646	T→A	5.2%	K201* (AAA→TAA)	yjiN ←	zinc‑type alcohol dehydrogenase‑like protein
RA	4,583,640	A→G	5.1%	V1041A (GTC→GCC)	hsdR ←	endonuclease R Type I restriction enzyme
RA	4,587,080	A→T	6.4%	R44R (CGA→CGT)	mrr →	methylated adenine and cytosine restriction protein
RA	4,620,090	C→T	9.7%	T163I (ACC→ATC)	deoB →	phosphopentomutase
RA	4,620,095	A→T	8.9%	K165* (AAG→TAG) ‡	deoB →	phosphopentomutase
RA	4,620,096	A→T	9.4%	K165M (AAG→ATG) ‡	deoB →	phosphopentomutase
RA	4,620,101	A→G	9.1%	I167V (ATT→GTT)	deoB →	phosphopentomutase
RA	4,636,886	A→C	5.8%	H64P (CAT→CCT)	creC →	sensory histidine kinase in two‑component regulatory system with CreB or PhoB
RA	4,638,691	A→G	6.2%	T172A (ACC→GCC)	creD →	inner membrane protein
RA	4,639,554	A→T	9.2%	intergenic (+24/+36)	creD → / ← arcA	inner membrane protein/response regulator in two‑component regulatory system with ArcB or CpxA
RA	4,639,555	A→T	7.8%	intergenic (+25/+35)	creD → / ← arcA	inner membrane protein/response regulator in two‑component regulatory system with ArcB or CpxA
RA	4,639,556	A→T	8.2%	intergenic (+26/+34)	creD → / ← arcA	inner membrane protein/response regulator in two‑component regulatory system with ArcB or CpxA
RA	4,639,557	A→T	7.2%	intergenic (+27/+33)	creD → / ← arcA	inner membrane protein/response regulator in two‑component regulatory system with ArcB or CpxA

Unassigned missing coverage evidence
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	3423760–3424548	3424548	1–789	35 [33]	[33] 34	[rrfD]–[rrlD]	[rrfD],[rrlD]

Unassigned new junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 224374	NA (NA)	3 (0.040)	3/262	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	224891 =	NA (NA)	7 (0.090)	6/268	NT	NA	noncoding (1121/1542 nt)	rrsH	16S ribosomal RNA of rrnH operon
	?	NC_000913	224923 =	NA (NA)					noncoding (1153/1542 nt)	rrsH	16S ribosomal RNA of rrnH operon
*	?	NC_000913	= 227424	NA (NA)	5 (0.060)	4/268	NT	NA	noncoding (1666/2904 nt)	rrlH	23S ribosomal RNA of rrnH operon
	?	NC_000913	= 227448	NA (NA)					noncoding (1690/2904 nt)	rrlH	23S ribosomal RNA of rrnH operon
*	?	NC_000913	273987 =	NA (NA)	4 (0.050)	3/264	NT	NA	noncoding (1163/1195 nt)	IS5	repeat region
	?	NC_000913	274057 =	NA (NA)					noncoding (1093/1195 nt)	IS5	repeat region
*	?	NC_000913	274038 =	NA (NA)	5 (0.060)	4/264	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)	4 (0.050)	4/262	NT	NA	noncoding (803/1195 nt)	IS5	repeat region
	?	NC_000913	274410 =	NA (NA)					noncoding (740/1195 nt)	IS5	repeat region
*	?	NC_000913	274620 =	NA (NA)	9 (0.120)	6/258	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)	3 (0.040)	3/270	NT	NA	noncoding (526/1195 nt)	IS5	repeat region
	?	NC_000913	= 274693	NA (NA)					noncoding (457/1195 nt)	IS5	repeat region
*	?	NC_000913	381681 =	NA (NA)	4 (0.050)	4/258	NT	NA	noncoding (422/1331 nt)	IS2	repeat region
	?	NC_000913	381753 =	NA (NA)					noncoding (494/1331 nt)	IS2	repeat region
*	?	NC_000913	= 381689	NA (NA)	3 (0.040)	3/258	NT	NA	noncoding (430/1331 nt)	IS2	repeat region
	?	NC_000913	= 381743	NA (NA)					noncoding (484/1331 nt)	IS2	repeat region
*	?	NC_000913	= 381976	NA (NA)	4 (0.050)	4/266	NT	NA	noncoding (717/1331 nt)	IS2	repeat region
	?	NC_000913	= 382051	NA (NA)					noncoding (792/1331 nt)	IS2	repeat region
*	?	NC_000913	438164 =	72 (0.880)	12 (0.150)	10/270	NT	14.1%	intergenic (‑29/+151)	yajO/dxs	2‑carboxybenzaldehyde reductase/1‑deoxyxylulose‑5‑phosphate synthase, thiamine triphosphate‑binding, FAD‑requiring
	?	NC_000913	438263 =	76 (0.950)					intergenic (‑128/+52)	yajO/dxs	2‑carboxybenzaldehyde reductase/1‑deoxyxylulose‑5‑phosphate synthase, thiamine triphosphate‑binding, FAD‑requiring
*	?	NC_000913	960699 =	72 (0.880)	7 (0.090)	6/258	NT	9.8%	coding (436/765 nt)	ycaL	putative peptidase‑related chaperone
	?	NC_000913	960752 =	61 (0.800)					coding (489/765 nt)	ycaL	putative peptidase‑related chaperone
*	?	NC_000913	1008371 =	71 (0.860)	4 (0.050)	4/264	NT	5.8%	coding (528/2109 nt)	rlmL	23S rRNA m(2)G2445 and m(7)G2069 methyltransferases, SAM‑dependent
	?	NC_000913	1008413 =	63 (0.800)					coding (570/2109 nt)	rlmL	23S rRNA m(2)G2445 and m(7)G2069 methyltransferases, SAM‑dependent
*	?	NC_000913	= 1112477	66 (0.800)	4 (0.050)	3/262	NT	5.5%	coding (1615/2544 nt)	opgH	OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist
	?	NC_000913	= 1112508	75 (0.960)					coding (1646/2544 nt)	opgH	OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist
*	?	NC_000913	= 1128988	67 (0.820)	4 (0.050)	4/258	NT	6.1%	coding (1150/1536 nt)	murJ	putative lipid II flippase
	?	NC_000913	= 1129032	60 (0.780)					coding (1194/1536 nt)	murJ	putative lipid II flippase
*	?	NC_000913	1192433 =	71 (0.860)	4 (0.050)	4/266	NT	5.4%	coding (199/642 nt)	hflD	putative lysogenization regulator
	?	NC_000913	1192490 =	72 (0.910)					coding (142/642 nt)	hflD	putative lysogenization regulator
*	?	NC_000913	1207790 =	3 (0.040)	16 (0.220)	15/244	NT	87.3%	coding (290/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	1209619 =	2 (0.030)					pseudogene (1/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	= 1207805	4 (0.050)	24 (0.330)	18/244	NT	89.7%	coding (305/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	= 1209602	2 (0.030)					pseudogene (18/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	= 1299498	0 (0.000)	72 (0.900)	58/268	NT	100%	intergenic (+253/‑1684)	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
	?	NC_000913	1300698 =	0 (0.000)					intergenic (+1453/‑484)	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
*	?	NC_000913	= 1364021	69 (0.840)	4 (0.050)	4/268	NT	6.0%	coding (1279/1488 nt)	puuC	gamma‑glutamyl‑gamma‑aminobutyraldehyde dehydrogenase; succinate semialdehyde dehydrogenase
	?	NC_000913	= 1364068	59 (0.740)					coding (1326/1488 nt)	puuC	gamma‑glutamyl‑gamma‑aminobutyraldehyde dehydrogenase; succinate semialdehyde dehydrogenase
*	?	NC_000913	1396531 =	NA (NA)	14 (0.180)	5/264	NT	NA	noncoding (488/1195 nt)	IS5	repeat region
	?	NC_000913	= 1428264	NA (NA)					noncoding (531/1196 nt)	IS5	repeat region
*	?	NC_000913	1636392 =	58 (0.710)	6 (0.080)	3/244	NT	11.6%	intergenic (‑25/‑364)	nohQ/ynfO	pseudogene, Qin prophage; Phage DNA packaging protein Nu1 family;Phage or Prophage Related; DNA packaging protein NU1 homolog from lambdoid prophage Qin/uncharacterized protein, Qin prophage
	?	NC_000913	1636449 =	40 (0.550)					intergenic (‑82/‑307)	nohQ/ynfO	pseudogene, Qin prophage; Phage DNA packaging protein Nu1 family;Phage or Prophage Related; DNA packaging protein NU1 homolog from lambdoid prophage Qin/uncharacterized protein, Qin prophage
*	?	NC_000913	= 1665448	60 (0.730)	4 (0.050)	3/268	NT	6.4%	coding (134/1257 nt)	clcB	H(+)/Cl(‑) exchange transporter
	?	NC_000913	= 1665514	59 (0.740)					coding (200/1257 nt)	clcB	H(+)/Cl(‑) exchange transporter
*	?	NC_000913	= 1753923	70 (0.850)	5 (0.060)	5/260	NT	9.1%	coding (555/627 nt)	ydhY	putative 4Fe‑4S ferridoxin‑type protein; FNR, Nar, NarP‑regulated protein; putative subunit of YdhYVWXUT oxidoreductase complex
	?	NC_000913	1757094 =	34 (0.440)					coding (1397/1413 nt)	pykF	pyruvate kinase I
*	?	NC_000913	= 2076898	87 (1.060)	5 (0.060)	5/262	NT	5.9%	coding (82/222 nt)	yeeT	CP4‑44 prophage; uncharacterized protein
	?	NC_000913	= 2076929	78 (1.000)					coding (113/222 nt)	yeeT	CP4‑44 prophage; uncharacterized protein
*	?	NC_000913	2097852 =	74 (0.900)	4 (0.050)	4/264	NT	5.3%	coding (450/981 nt)	wzzB	regulator of length of O‑antigen component of lipopolysaccharide chains
	?	NC_000913	2097893 =	73 (0.930)					coding (409/981 nt)	wzzB	regulator of length of O‑antigen component of lipopolysaccharide chains
*	?	NC_000913	2125678 =	80 (0.970)	4 (0.050)	3/260	NT	5.3%	coding (69/1224 nt)	wcaI	putative glycosyl transferase
	?	NC_000913	2125718 =	68 (0.880)					coding (29/1224 nt)	wcaI	putative glycosyl transferase
*	?	NC_000913	= 2163841	68 (0.830)	4 (0.050)	3/266	NT	5.4%	coding (966/1404 nt)	baeS	sensory histidine kinase in two‑component regulatory system with BaeR
	?	NC_000913	= 2163864	74 (0.940)					coding (989/1404 nt)	baeS	sensory histidine kinase in two‑component regulatory system with BaeR
*	?	NC_000913	= 2270096	85 (1.040)	7 (0.090)	5/256	NT	8.0%	coding (118/567 nt)	mepS	murein DD‑endopeptidase, space‑maker hydrolase, mutational suppressor of prc thermosensitivity, outer membrane lipoprotein, weak murein LD‑carboxypeptidase
	?	NC_000913	= 2270134	83 (1.090)					coding (156/567 nt)	mepS	murein DD‑endopeptidase, space‑maker hydrolase, mutational suppressor of prc thermosensitivity, outer membrane lipoprotein, weak murein LD‑carboxypeptidase
*	?	NC_000913	2448355 =	61 (0.740)	7 (0.090)	6/264	NT	11.1%	coding (86/933 nt)	prmB	N5‑glutamine methyltransferase
	?	NC_000913	2448382 =	54 (0.690)					coding (59/933 nt)	prmB	N5‑glutamine methyltransferase
*	?	NC_000913	2466457 =	77 (0.940)	4 (0.050)	4/260	NT	5.0%	intergenic (+74/‑88)	argW/intS	tRNA‑Arg/CPS‑53 (KpLE1) prophage; putative prophage CPS‑53 integrase
	?	NC_000913	2466501 =	79 (1.020)					intergenic (+118/‑44)	argW/intS	tRNA‑Arg/CPS‑53 (KpLE1) prophage; putative prophage CPS‑53 integrase
*	?	NC_000913	= 2553451	58 (0.710)	4 (0.050)	3/270	NT	5.8%	coding (227/900 nt)	hemF	coproporphyrinogen III oxidase
	?	NC_000913	= 2553492	74 (0.920)					coding (268/900 nt)	hemF	coproporphyrinogen III oxidase
*	?	NC_000913	2618654 =	78 (0.950)	4 (0.050)	4/258	NT	5.0%	coding (123/702 nt)	hda	ATPase regulatory factor involved in DnaA inactivation
	?	NC_000913	2618740 =	79 (1.030)					coding (37/702 nt)	hda	ATPase regulatory factor involved in DnaA inactivation
*	?	NC_000913	2658547 =	85 (1.040)	5 (0.060)	3/264	NT	5.6%	coding (389/1851 nt)	hscA	DnaK‑like molecular chaperone specific for IscU
	?	NC_000913	2658585 =	86 (1.100)					coding (351/1851 nt)	hscA	DnaK‑like molecular chaperone specific for IscU
*	?	NC_000913	= 2692271	68 (0.830)	6 (0.080)	4/268	NT	8.3%	coding (3273/3888 nt)	purL	phosphoribosylformyl‑glycineamide synthetase
	?	NC_000913	= 2692311	66 (0.830)					coding (3233/3888 nt)	purL	phosphoribosylformyl‑glycineamide synthetase
*	?	NC_000913	= 2729452	37 (0.450)	4 (0.050)	4/256	NT	9.2%	intergenic (‑8/+164)	gltW/rrsG	tRNA‑Glu/16S ribosomal RNA of rrnG operon
	?	NC_000913	= 2729474	45 (0.590)					intergenic (‑30/+142)	gltW/rrsG	tRNA‑Glu/16S ribosomal RNA of rrnG operon
*	?	NC_000913	= 2730286	NA (NA)	5 (0.060)	4/260	NT	NA	noncoding (872/1542 nt)	rrsG	16S ribosomal RNA of rrnG operon
	?	NC_000913	= 2730329	NA (NA)					noncoding (829/1542 nt)	rrsG	16S ribosomal RNA of rrnG operon
*	?	NC_000913	2743858 =	85 (1.040)	5 (0.060)	3/268	NT	5.7%	coding (234/483 nt)	yfiB	OM lipoprotein putative positive effector of YfiN activity
	?	NC_000913	2743964 =	83 (1.040)					coding (340/483 nt)	yfiB	OM lipoprotein putative positive effector of YfiN activity
*	?	NC_000913	2822046 =	99 (1.210)	7 (0.090)	6/264	NT	6.9%	intergenic (‑35/+93)	alaS/recX	alanyl‑tRNA synthetase/regulatory protein for RecA
	?	NC_000913	2822080 =	95 (1.210)					intergenic (‑69/+59)	alaS/recX	alanyl‑tRNA synthetase/regulatory protein for RecA
*	?	NC_000913	= 2913494	83 (1.010)	5 (0.060)	4/262	NT	6.0%	coding (158/2235 nt)	relA	(p)ppGpp synthetase I/GTP pyrophosphokinase
	?	NC_000913	= 2913514	79 (1.010)					coding (138/2235 nt)	relA	(p)ppGpp synthetase I/GTP pyrophosphokinase
*	?	NC_000913	= 2930618	71 (0.860)	5 (0.060)	3/264	NT	7.2%	coding (1043/1368 nt)	sdaB	L‑serine dehydratase 2
	?	NC_000913	= 2930694	61 (0.780)					coding (1119/1368 nt)	sdaB	L‑serine dehydratase 2
*	?	NC_000913	3052180 =	72 (0.880)	4 (0.050)	4/264	NT	5.4%	coding (138/1203 nt)	ubiI	2‑octaprenylphenol hydroxylase, FAD‑dependent
	?	NC_000913	3052281 =	70 (0.890)					coding (37/1203 nt)	ubiI	2‑octaprenylphenol hydroxylase, FAD‑dependent
*	?	NC_000913	3204360 =	80 (0.970)	5 (0.070)	5/258	NT	6.3%	coding (230/369 nt)	folB	dihydroneopterin aldolase and dihydroneopterin triphosphate 2'‑epimerase
	?	NC_000913	3204409 =	75 (0.980)					coding (181/369 nt)	folB	dihydroneopterin aldolase and dihydroneopterin triphosphate 2'‑epimerase
*	?	NC_000913	= 3299608	64 (0.780)	6 (0.080)	4/256	NT	8.7%	coding (308/444 nt)	yhbP	UPF0306 family protein
	?	NC_000913	= 3299630	66 (0.870)					coding (286/444 nt)	yhbP	UPF0306 family protein
*	?	NC_000913	= 3332103	88 (1.070)	5 (0.060)	4/264	NT	5.3%	coding (633/966 nt)	yhbE	EamA family inner membrane putative transporter
	?	NC_000913	= 3332130	95 (1.210)					coding (606/966 nt)	yhbE	EamA family inner membrane putative transporter
*	?	NC_000913	3406642 =	75 (0.910)	4 (0.050)	4/268	NT	5.1%	coding (726/1350 nt)	accC	acetyl‑CoA carboxylase, biotin carboxylase subunit
	?	NC_000913	3406680 =	75 (0.940)					coding (764/1350 nt)	accC	acetyl‑CoA carboxylase, biotin carboxylase subunit
*	?	NC_000913	= 3470960	NA (NA)	4 (0.050)	3/264	NT	NA	coding (370/1185 nt)	tufA	translation elongation factor EF‑Tu 1
	?	NC_000913	= 3470998	NA (NA)					coding (332/1185 nt)	tufA	translation elongation factor EF‑Tu 1
*	?	NC_000913	= 3620220	NA (NA)	6 (0.080)	4/264	NT	100%	coding (1029/4236 nt)	rhsB	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
	?	NC_000913	= 3620255	0 (0.000)					coding (1064/4236 nt)	rhsB	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
*	?	NC_000913	3620227 =	NA (NA)	4 (0.050)	4/264	NT	100%	coding (1036/4236 nt)	rhsB	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
	?	NC_000913	3620250 =	0 (0.000)					coding (1059/4236 nt)	rhsB	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
*	?	NC_000913	= 3841048	80 (0.970)	4 (0.050)	4/264	NT	5.1%	coding (692/1191 nt)	nepI	putative transporter
	?	NC_000913	= 3841143	72 (0.920)					coding (597/1191 nt)	nepI	putative transporter
*	?	NC_000913	= 3951734	43 (0.520)	58 (0.750)	48/260	NT	61.5%	pseudogene (193/663 nt)	ilvG	pseudogene, acetolactate synthase 2 large subunit, valine‑insensitive; acetolactate synthase II, large subunit, cryptic, interrupted
	?	NC_000913	3952061 =	32 (0.410)					pseudogene (520/663 nt)	ilvG	pseudogene, acetolactate synthase 2 large subunit, valine‑insensitive; acetolactate synthase II, large subunit, cryptic, interrupted
*	?	NC_000913	4042448 =	85 (1.040)	4 (0.050)	3/258	NT	5.1%	coding (34/987 nt)	srkA	Cpx stress response Thr/Ser protein kinase; MazF antagonist protein
	?	NC_000913	4042496 =	69 (0.900)					coding (82/987 nt)	srkA	Cpx stress response Thr/Ser protein kinase; MazF antagonist protein
*	?	NC_000913	4161618 =	87 (1.060)	6 (0.080)	4/264	NT	6.8%	coding (495/648 nt)	fabR	transcriptional repressor of fabA and fabB
	?	NC_000913	4161657 =	81 (1.030)					coding (534/648 nt)	fabR	transcriptional repressor of fabA and fabB
*	?	NC_000913	4238350 =	89 (1.080)	5 (0.060)	3/268	NT	5.8%	coding (717/2097 nt)	yjbH	DUF940 family extracellular polysaccharide protein
	?	NC_000913	4238406 =	75 (0.940)					coding (773/2097 nt)	yjbH	DUF940 family extracellular polysaccharide protein
*	?	NC_000913	= 4417460	88 (1.070)	7 (0.090)	5/262	NT	7.5%	coding (509/750 nt)	yjfP	acyl CoA esterase
	?	NC_000913	= 4417479	88 (1.130)					coding (528/750 nt)	yjfP	acyl CoA esterase
*	?	NC_000913	4531468 =	86 (1.050)	7 (0.090)	4/266	NT	7.4%	coding (184/1122 nt)	sgcX	putative endoglucanase with Zn‑dependent exopeptidase domain
	?	NC_000913	4531508 =	92 (1.160)					coding (144/1122 nt)	sgcX	putative endoglucanase with Zn‑dependent exopeptidase domain
*	?	NC_000913	= 4549784	NA (NA)	5 (0.060)	5/264	NT	NA	noncoding (2/36 nt)	REP345 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP345 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913	= 4549822	NA (NA)					intergenic (+112/+131)	fimH/gntP	minor component of type 1 fimbriae/fructuronate transporter
*	?	NC_000913	= 4551007	62 (0.760)	5 (0.060)	4/260	NT	7.7%	coding (290/1344 nt)	gntP	fructuronate transporter
	?	NC_000913	= 4551030	61 (0.790)					coding (267/1344 nt)	gntP	fructuronate transporter