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

Predicted mutations
evidence	position	mutation	annotation	gene	description
RA	293	A→G	intergenic (+38/‑44)	thrL → / → thrA	thr operon leader peptide/aspartokinase I
RA	1,999	A→G	T555A (ACT→GCT)	thrA →	aspartokinase I
RA	2,217	T→C	D627D (GAT→GAC)	thrA →	aspartokinase I
RA	4,929	A→G	E399G (GAG→GGG)	thrC →	threonine synthase
RA	8,533	C→T	A99V (GCG→GTG)	talB →	transaldolase B
RA	16,941	A→G	V7A (GTG→GCG)	gef ←	Gef
RA	27,903	T→C	L204P (CTG→CCG)	yaaF →	hypothetical protein
RA	32,257	A→G	I481V (ATC→GTC)	carB →	carbamoyl‑phosphate synthase large subunit
RA	37,332	A→G	C165R (TGC→CGC)	caiC ←	putative crotonobetain
RA	52,312	G→A	A40V (GCG→GTG)	ksgA ←	S‑adenosylmethionine‑6‑N',N'‑adenosyl (rRNA) dimethyltransferase
RA	52,554	A→G	L288P (CTG→CCG)	pdxA ←	PdxA
RA	52,760	A→G	G219G (GGT→GGC)	pdxA ←	PdxA
RA	54,157	C→T	P182P (CCG→CCA)	surA ←	survival protein
RA	55,791	A→G	L440P (CTC→CCC)	imp ←	organic solvent tolerance
RA	66,528	T→C	Q8R (CAG→CGG)	araD ←	L‑ribulose‑5‑phosphate 4‑epimerase
MC JC	66,533	3540 bp→27 bp		[araD]–araB	[araD], araA, araB
RA	70,289	G→T	intergenic (‑241/‑98)	araB ← / → araC	L‑ribulokinase/transcriptional regulator for ara operon
RA	70,940	A→G	Y185C (TAC→TGC)	araC →	transcriptional regulator for ara operon
RA	73,833	A→G	I230T (ATC→ACC)	yabK ←	putative transport system permease protein
RA	76,142	A→G	R386R (CGT→CGC)	yabN ←	putative transport protein
RA	78,003	A→C	E128A (GAG→GCG)	yabM →	putative transport protein
RA	79,855	A→G	V337A (GTG→GCG)	leuC ←	3‑isopropylmalate isomerase (dehydratase) subunit
RA	80,603	(T)5→6	coding (262/1401 nt)	leuC ←	3‑isopropylmalate isomerase (dehydratase) subunit
RA	85,694	T→C	V22A (GTA→GCA)	ilvI →	acetolactate synthase isozyme III large subunit
RA	89,802	G→A	E57K (GAG→AAG)	yabB →	hypothetical protein
RA	89,815	C→T	S61L (TCG→TTG)	yabB →	hypothetical protein
RA	92,447	A→G	A345A (GCA→GCG)	ftsI →	penicillin‑binding protein 3
RA	102,844	A→G	Q204Q (CAA→CAG)	ddlB →	D‑alanine‑D‑alanine ligase B
RA	112,238	A→G	V121A (GTG→GCG)	yacF ←	hypothetical protein
RA	115,788	A→G	C438R (TGC→CGC)	hofB ←	HofB
RA	115,968	+G	coding (1132/1386 nt)	hofB ←	HofB
RA	122,235	T→C	R48R (CGT→CGC)	pdhR →	transcriptional regulator for pyruvate dehydrogenase complex
RA	126,160	A→G	T156A (ACC→GCC)	aceF →	pyruvate dehydrogenase
RA	131,075	A→G	P62P (CCT→CCC)	yacH ←	putative membrane protein
RA	134,838	A→G	W249R (TGG→CGG)	speD ←	S‑adenosylmethionine decarboxylase
RA	137,057	G→A	intergenic (‑140/‑26)	yacC ← / → yacK	hypothetical protein/hypothetical protein
RA	140,043	T→C	T395A (ACC→GCC)	gcd ←	glucose dehydrogenase
RA	158,711	C→T	R128H (CGC→CAC)	pcnB ←	poly(A) polymerase I
RA	160,649	A→G	intergenic (‑45/+133)	dksA ← / ← sfsA	DksA/putative regulator for maltose metabolism
RA	177,386	C→T	R80H (CGC→CAC)	yadS ←	hypothetical protein
RA	178,128	A→G	I112T (ATT→ACT)	yadT ←	hypothetical protein
RA	186,043	T→C	N870D (AAC→GAC)	glnD ←	protein PII
RA	187,838	A→G	R271R (CGT→CGC)	glnD ←	protein PII
RA	194,316	A→G	S266G (AGT→GGT)	yaeM →	putative ATP‑binding component of a transport system
RA	195,014	A→G	I38V (ATT→GTT)	yaeS →	hypothetical protein
RA	196,710	C→T	L55L (CTC→CTT)	yaeL →	hypothetical protein
RA	198,418	A→G	D164G (GAC→GGC)	yaeT →	hypothetical protein
RA	199,879	A→G	N651S (AAC→AGC)	yaeT →	hypothetical protein
RA	200,585	A→G	Q35R (CAG→CGG)	hlpA →	histone‑like protein
RA	203,560	T→C	R71R (CGT→CGC)	lpxB →	tetraacyldisaccharide‑1‑P
RA	204,556	C→G	P22A (CCG→GCG)	rnhB →	RNAse HII
RA	204,590	T→A	I33N (ATC→AAC)	rnhB →	RNAse HII
RA	206,483	A→G	Y453C (TAC→TGC)	dnaE →	DNA polymerase III alpha subunit
RA	229,560	A→G	T132A (ACG→GCG)	yafB →	putative aldose reductase
RA	229,683	A→G	I173V (ATC→GTC)	yafB →	putative aldose reductase
RA	230,556	A→G	M109T (ATG→ACG)	yafC ←	putative transcriptional regulator LYSR‑type
RA	232,218	A→G	D98G (GAC→GGC)	yafE →	putative biotin synthesis protein
RA	251,736	A→G	D280G (GAT→GGT)	dinP →	damage‑inducible protein P
RA	266,105	A→G	intergenic (‑328/+303)	yafY ← / ← yafZ	hypothetical protein/hypothetical protein
RA	271,281	G→A	G76G (GGG→GGA)	b0257 →	putative transposase
RA	271,938	A→G	intergenic (+459/‑148)	b0257 → / → ykfC	putative transposase/hypothetical protein
RA	274,443	C→T	intergenic (‑102/‑106)	trs51 ← / → ykfD	IS5 transposase/putative amino acid/amine transport protein
RA	277,917	A→G	L41P (CTG→CCG)	afuC ←	AfuC
RA	285,775	A→G	Y386C (TAC→TGC)	yagG →	putative permease
RA	294,990	T→C	H444R (CAC→CGC)	intF ←	putative phage integrase
RA	300,243	+G	coding (869/957 nt)	yagS ←	hypothetical protein
RA	301,875	A→G	intergenic (‑78/‑340)	yagT ← / → yagU	putative xanthine dehydrogenase/hypothetical protein
RA	302,564	A→G	Y117C (TAT→TGT)	yagU →	hypothetical protein
RA	307,684	T→C	L291L (TTA→TTG)	yagX ←	hypothetical protein
RA	308,649	A→G	V201A (GTG→GCG)	yagY ←	hypothetical protein
RA	308,935	G→A	R106C (CGC→TGC)	yagY ←	hypothetical protein
RA	309,281	(G)6→7	intergenic (‑31/+27)	yagY ← / ← yagZ	hypothetical protein/hypothetical protein
RA	318,413	G→A	R280R (CGC→CGT)	ykgC ←	putative oxidoreductase
RA	321,039	G→A	D70N (GAC→AAC)	ykgE →	putative dehydrogenase subunit
RA	328,027	T→C	T184A (ACC→GCC)	betI ←	putative transcriptional repressor of bet genes
RA	329,174	A→G	Y163C (TAC→TGC)	betT →	high‑affinity choline transport
RA	332,019	T→C	V142A (GTG→GCG)	yahA →	hypothetical protein
RA	332,530	T→C	P312P (CCT→CCC)	yahA →	hypothetical protein
RA	339,498	T→C	V37A (GTG→GCG)	yahI →	putative kinase
RA	339,531	T→C	V48A (GTG→GCG)	yahI →	putative kinase
RA	342,821	C→T	F238F (TTC→TTT)	yahK →	putative oxidoreductase
RA	346,920	T→C	T250A (ACG→GCG)	prpR ←	regulator for prp operon
RA	347,902	G→A	intergenic (‑235/‑4)	prpR ← / → prpB	regulator for prp operon/putative phosphonomutase 2
RA	350,624	+G	coding (186/1452 nt)	prpD →	hypothetical protein
RA	361,946	A→G	L153P (CTG→CCG)	lacY ←	galactoside permease
RA	367,140	C→T	A207T (GCC→ACC)	mhpR ←	transcriptional regulator for mhp operon
RA	367,441	A→G	D106D (GAT→GAC)	mhpR ←	transcriptional regulator for mhp operon
RA	374,060	G→A	E323E (GAG→GAA)	mhpE →	4‑hydroxy‑2‑ketovalerate aldolase
RA	379,246	(G)10→9	intergenic (‑120/+47)	yaiN ← / ← yaiO	putative alpha helix chain/hypothetical protein
RA	384,546	A→G	T50A (ACC→GCC)	tauA →	TauA
RA	405,539	A→G	intergenic (+93/‑90)	yaiI → / → aroL	hypothetical protein/shikimate kinase II
RA	409,218	A→G	V9A (GTT→GCT)	yaiD ←	hypothetical protein
RA	411,562	T→C	A76A (GCA→GCG)	araJ ←	AraJ
RA	416,945	A→G	T194A (ACG→GCG)	phoB →	positive response regulator for pho regulon
RA	419,492	T→C	R226R (CGT→CGC)	brnQ →	branched chain amino acid transport system II carrier protein
RA	419,767	T→C	V318A (GTG→GCG)	brnQ →	branched chain amino acid transport system II carrier protein
RA	432,925	C→T	P83S (CCG→TCG)	ribD →	pyrimidine deaminase
RA	435,927	A→G	T39A (ACG→GCG)	pgpA →	phosphatidylglycerophosphatase
RA	436,659	T→C	E258G (GAG→GGG)	yajO ←	putative NAD(P)H‑dependent xylose reductase
RA	438,194	A→G	V403A (GTG→GCG)	dxs ←	1‑deoxyxylulose‑5‑phosphate synthase
RA	439,695	A→G	Y211H (TAT→CAT)	ispA ←	geranyltranstransferase
RA	446,355	T→C	N192S (AAC→AGC)	cyoE ←	protoheme IX farnesyltransferase
RA	446,850	A→G	L27P (CTG→CCG)	cyoE ←	protoheme IX farnesyltransferase
RA	450,780	T→C	T19A (ACT→GCT)	cyoA ←	cytochrome o ubiquinol oxidase subunit II
RA	451,404	A→G	F456L (TTC→CTC)	ampG ←	AmpG
RA	458,228	T→C	C39C (TGT→TGC)	lon →	ATP‑dependent protease La
RA	459,323	T→C	G404G (GGT→GGC)	lon →	ATP‑dependent protease La
RA	459,477	T→C	Y456H (TAC→CAC)	lon →	ATP‑dependent protease La
RA	477,096	A→G	L251P (CTC→CCC)	ylaB ←	hypothetical protein
RA	477,192	A→G	L219P (CTG→CCG)	ylaB ←	hypothetical protein
RA	477,992	A→G	intergenic (‑145/+13)	ylaB ← / ← ylaC	hypothetical protein/hypothetical protein
RA	480,099	A→G	intergenic (‑167/+379)	ybaJ ← / ← acrB	hypothetical protein/acridine efflux pump
RA	481,041	A→G	S863P (TCC→CCC)	acrB ←	acridine efflux pump
RA	482,211	T→C	T473A (ACC→GCC)	acrB ←	acridine efflux pump
RA	488,917	A→G	E1053G (GAG→GGG)	aefA →	putative alpha helix protein
RA	493,536	C→T	D79D (GAC→GAT)	ybaB →	hypothetical protein
RA	495,182	T→C	I280T (ATC→ACC)	htpG →	chaperone Hsp90
RA	500,613	A→G	E422G (GAG→GGG)	gsk →	inosine‑guanosine kinase
RA	502,019	T→C	Q148Q (CAA→CAG)	ybaL ←	putative transport protein
RA	502,653	C→T	intergenic (‑191/+47)	ybaL ← / ← fsr	putative transport protein/fosmidomycin resistance protein
RA	504,799	A→G	Y221C (TAC→TGC)	ushA →	UDP‑sugar hydrolase (5'‑nucleotidase)
RA	526,302	(G)6→7	coding (3818/4281 nt)	rhsD →	RhsD
RA	528,636	T→C	intergenic (+282/+233)	b0501 → / ← b0502	hypothetical protein/hypothetical protein
RA	531,453	T→C	intergenic (‑8/‑222)	ybbS ← / → ybbT	putative transcriptional regulator LYSR‑type/hypothetical protein
RA	539,651	A→G	L427L (TTA→TTG)	ybbX →	putative hydrolase
RA	541,786	+G	coding (675/1146 nt)	ybbZ →	hypothetical protein
RA	547,694	A→G	E38E (GAA→GAG)	b4507 →	hypothetical protein
RA	547,835	+G	coding (255/261 nt)	b4507 →	hypothetical protein
RA	556,959	T→C	A2A (GCA→GCG)	folD ←	5,10‑methylene‑tetrahydrofolate dehydrogenase
RA	564,469	G→A	R245C (CGC→TGC)	intD ←	prophage DLP12 integrase
RA	568,823	A→G	G233G (GGA→GGG)	ybcK →	hypothetical protein
RA	573,038	C→T	T29I (ACC→ATC)	b4508 →	hypothetical protein
RA	573,627	T→C	intergenic (+65/‑77)	ybcQ → / → b4509	hypothetical protein/hypothetical protein
RA	578,967	T→C	intergenic (‑108/‑136)	ybcV ← / → ybcW	putative envelope protein/hypothetical protein
RA	591,166	A→G	G412G (GGT→GGC)	nfrB ←	NfrB
RA	592,232	C→T	R57Q (CGA→CAA)	nfrB ←	NfrB
RA	595,469	A→G	Q216R (CAG→CGG)	ylcB →	putative resistance protein
RA	613,409	A→G	A10A (GCA→GCG)	entF →	ATP‑dependent serine activating enzyme
RA	628,816	A→G	V98V (GTA→GTG)	ybdB →	hypothetical protein
RA	629,933	T→C	W273R (TGG→CGG)	cstA →	carbon starvation protein
RA	631,241	A→G	intergenic (+19/‑164)	cstA → / → ybdD	carbon starvation protein/hypothetical protein
RA	641,051	T→C	M14V (ATG→GTG)	ybdQ ←	hypothetical protein
RA	645,034	A→G	V257A (GTG→GCG)	ybdS ←	YbdS
RA	647,331	G→A	D488D (GAC→GAT)	citF ←	citrate lyase alpha chain
RA	651,666	T→C	V70A (GTC→GCC)	citA →	putative sensor‑type protein
RA	652,748	A→G	T431A (ACC→GCC)	citA →	putative sensor‑type protein
RA	653,656	G→A	R191H (CGC→CAC)	citB →	CitB
RA	654,812	G→A	A127V (GCC→GTC)	dcuC ←	DcuC
RA	656,969	A→G	W65R (TGG→CGG)	crcB ←	hypothetical protein
RA	657,246	A→G	intergenic (‑85/‑8)	crcB ← / → ybeH	hypothetical protein/hypothetical protein
RA	667,973	C→T	R96H (CGC→CAC)	ybeB ←	hypothetical protein
RA	671,943	T→C	A688A (GCA→GCG)	leuS ←	leucine tRNA synthetase
RA	672,914	C→T	G365S (GGC→AGC)	leuS ←	leucine tRNA synthetase
RA	673,104	T→C	K301K (AAA→AAG)	leuS ←	leucine tRNA synthetase
RA	675,063	A→G	A236A (GCT→GCC)	ybeQ ←	hypothetical protein
RA	688,367	T→C	intergenic (‑131/+199)	trs53 ← / ← lnt	IS5 transposase/apolipoprotein N‑acyltransferase
RA	689,228	T→C	S293G (AGC→GGC)	lnt ←	apolipoprotein N‑acyltransferase
RA	700,788	A→G	G10G (GGT→GGC)	nagC ←	NagC
RA	701,551	T→C	T142A (ACC→GCC)	nagA ←	N‑acetylglucosamine‑6‑phosphate deacetylase
RA	704,236	T→C	L357S (TTG→TCG)	nagE →	PTS system, N‑acetylglucosamine‑specific enzyme IIABC
RA	707,634	A→G	A26A (GCA→GCG)	ybfM →	hypothetical protein
RA	709,880	T→C	intergenic (‑11/+278)	fur ← / ← fldA	Fur/flavodoxin 1
RA	710,545	G→A	D48D (GAC→GAT)	fldA ←	flavodoxin 1
RA	717,670	T→C	I672V (ATC→GTC)	speF ←	ornithine decarboxylase isozyme
RA	722,751	(T)8→7	coding (887/2685 nt)	kdpD ←	KdpD
RA	723,954	G→A	G83G (GGC→GGT)	kdpC ←	KdpC
RA	735,021	C→T	A50V (GCC→GTC)	ybfC →	hypothetical protein
RA	744,690	T→C	R101R (CGT→CGC)	ybgL →	putative lactam utilization protein
RA	747,952	A→G	V85A (GTA→GCA)	ybgO ←	hypothetical protein
RA	752,007	T→C	G4G (GGA→GGG)	ybgD ←	putative fimbrial‑like protein
RA	758,405	C→T	A159A (GCC→GCT)	sucA →	2‑oxoglutarate dehydrogenase
RA	763,150	T→C	I305T (ATC→ACC)	sucC →	succinyl‑CoA synthetase beta subunit
RA	763,246	C→T	A337V (GCA→GTA)	sucC →	succinyl‑CoA synthetase beta subunit
RA	766,372	C→T	A389V (GCG→GTG)	hrsA →	PTS system fructose specific IIABC component
RA	772,731	A→G	Y156C (TAC→TGC)	cydB →	cytochrome d terminal oxidase polypeptide subunit II
RA	775,372	G→A	A101T (GCC→ACC)	tolR →	TolF
RA	780,533	A→G	intergenic (+88/‑59)	lysY → / → lysZ	tRNA‑Lys/tRNA‑Lys
RA	780,918	T→C	intergenic (+43/‑390)	lysQ → / → nadA	tRNA‑Lys/quinolinate synthetase A protein
RA	800,958	A→G	Q326R (CAG→CGG)	ybhH →	hypothetical protein
RA	804,639	C→T	G646G (GGC→GGT)	ybhJ →	hypothetical protein
RA	810,837	T→C	A31A (GCT→GCC)	bioC →	BioC
RA	814,470	A→G	K574K (AAA→AAG)	uvrB →	DNA repair; excision nuclease subunit B
RA	817,654	+G	coding (377/513 nt)	moaB →	molybdopterin biosynthesis protein B
RA	823,777	(A)5→6	intergenic (‑57/‑76)	ybhP ← / → ybhQ	hypothetical protein/hypothetical protein
RA	827,018	C→T	S396N (AGT→AAT)	ybhF ←	YbhF
RA	832,142	A→G	V11A (GTC→GCC)	ybiA ←	hypothetical protein
RA	839,124	T→C	N544S (AAC→AGC)	b0805 ←	putative outer membrane receptor for iron transport
RA	850,704	T→C	R373G (AGG→GGG)	ybiP ←	hypothetical protein
RA	854,155	A→G	I271I (ATT→ATC)	ybiS ←	hypothetical protein
RA	857,539	T→C	D249G (GAC→GGC)	ybiU ←	hypothetical protein
RA	862,272	T→C	T164A (ACT→GCT)	ybiY ←	putative pyruvate formate‑lyase activating enzyme 2
RA	865,377	C→T	G71R (GGG→AGG)	moeA ←	MoeA
RA	866,644	A→G	N285S (AAT→AGT)	ybiK →	putative asparaginase
RA	867,645	(C)8→7	coding (870/1839 nt)	b0829 →	hypothetical protein
RA	873,303	C→T	L368F (CTC→TTC)	b0833 →	hypothetical protein
RA	888,315	C→T	G243D (GGC→GAC)	b0847 ←	putative transport protein
RA	888,802	(A)7→6	coding (241/1686 nt)	b0847 ←	putative transport protein
RA	891,504	A→G	Q105Q (CAA→CAG)	rimK →	ribosomal protein S6 modification protein
RA	903,142	A→G	intergenic (‑185/+33)	artP ← / ← ybjP	ATP‑binding component of 3rd arginine transport system/hypothetical protein
RA	903,232	Δ1 bp	coding (459/516 nt)	ybjP ←	hypothetical protein
RA	903,254	A→G	V146A (GTC→GCC)	ybjP ←	hypothetical protein
RA	905,051	T→C	E321G (GAG→GGG)	b0868 ←	putative nucleotide di‑P‑sugar epimerase or dehydratase
RA	908,737	T→C	Q512Q (CAA→CAG)	poxB ←	pyruvate oxidase
RA	922,398	T→C	V88A (GTG→GCG)	yljA →	hypothetical protein
RA	932,454	A→G	Q3R (CAG→CGG)	ftsK →	cell division protein
RA	934,839	T→C	V798A (GTT→GCT)	ftsK →	cell division protein
RA	937,294	A→G	A26A (GCA→GCG)	ycaJ →	putative polynucleotide enzyme
RA	948,093	A→G	G233G (GGT→GGC)	ycaN ←	putative transcriptional regulator LYSR‑type
RA	950,532	T→C	Q749R (CAG→CGG)	pflB ←	formate acetyltransferase 1
RA	961,334	C→T	D39D (GAC→GAT)	rpsA →	30S ribosomal subunit protein S1
RA	963,286	A→G	H79R (CAC→CGC)	himD →	integration host factor beta subunit
RA	968,384	T→C	S266P (TCT→CCT)	ycaH →	hypothetical protein
RA	969,798	T→C	L396P (CTC→CCC)	ycaQ →	hypothetical protein
RA	974,364	A→G	I275V (ATT→GTT)	mukF →	MukF
RA	979,388	T→C	R1280R (CGT→CGC)	mukB →	MukB
RA	985,663	A→G	G181G (GGT→GGC)	ompF ←	outer membrane protein 1a
RA	987,323	C→T	A296T (GCC→ACC)	asnS ←	asparagine tRNA synthetase
RA	988,555	A→G	L342P (CTG→CCG)	pncB ←	nicotinate phosphoribosyltransferase
RA	991,040	A→G	N399S (AAC→AGC)	pepN →	aminopeptidase N
RA	996,684	A→G	S18P (TCC→CCC)	ycbP ←	hypothetical protein
RA	998,433	A→G	intergenic (+19/‑6)	ycbR → / → ycbS	putative chaperone/putative outer membrane protein
RA	999,571	A→G	Q378R (CAG→CGG)	ycbS →	putative outer membrane protein
RA	1,003,385	Δ1 bp	coding (186/681 nt)	ycbF →	putative chaperone
RA	1,003,911	(T)8→7	intergenic (+31/‑80)	ycbF → / → pyrD	putative chaperone/dihydro‑orotate dehydrogenase
RA	1,009,201	T→C	S5S (AGT→AGC)	uup →	putative ATP‑binding component of a transport system
RA	1,011,420	A→G	N66S (AAC→AGC)	pqiA →	paraquat‑inducible protein A
RA	1,017,437	T→C	D29G (GAC→GGC)	b0955 ←	putative ATP‑dependent protease
RA	1,019,162	A→G	Y39H (TAC→CAC)	ompA ←	outer membrane protein 3a
RA	1,021,376	A→G	D580D (GAT→GAC)	b0960 ←	hypothetical protein
RA	1,029,120	+C	coding (73/1191 nt)	b0967 ←	putative oxidoreductase
RA	1,035,719	C→T	T48M (ACG→ATG)	hyaE →	HyaE
RA	1,040,218	G→A	A127T (GCA→ACA)	appA →	phosphoanhydride phosphorylase
RA	1,048,676	A→G	S104P (TCC→CCC)	ymcD ←	hypothetical protein
RA	1,050,477	A→G	intergenic (‑79/‑207)	cspH ← / → cspG	cold shock‑like protein/CspG
RA	1,053,401	T→C	A657A (GCA→GCG)	torS ←	TorS
RA	1,053,515	T→C	G619G (GGA→GGG)	torS ←	TorS
RA	1,056,041	A→G	E186E (GAA→GAG)	torT →	TorT
RA	1,056,882	T→C	Y99C (TAC→TGC)	torR ←	TorR
RA	1,057,390	C→T	G28G (GGC→GGT)	torC →	trimethylamine N‑oxide reductase, cytochrome c‑type subunit
RA	1,059,305	A→G	H276R (CAT→CGT)	torA →	trimethylamine N‑oxide reductase subunit
RA	1,059,505	T→C	W343R (TGG→CGG)	torA →	trimethylamine N‑oxide reductase subunit
RA	1,060,946	A→G	E823G (GAG→GGG)	torA →	trimethylamine N‑oxide reductase subunit
RA	1,061,601	T→C	C194R (TGC→CGC)	torD →	TorD
RA	1,067,441	(A)6→5	coding (138/174 nt)	b4516 →	hypothetical protein
RA	1,071,190	T→C	T65A (ACG→GCG)	b1010 ←	hypothetical protein
RA	1,072,962	C→T	A73A (GCG→GCA)	b1012 ←	hypothetical protein
RA	1,074,484	C→T	A1208T (GCC→ACC)	putA ←	proline dehydrogenase
RA	1,086,713	A→G	R119R (CGT→CGC)	ycdQ ←	hypothetical protein
RA	1,088,752	A→G	V110A (GTG→GCG)	ycdR ←	hypothetical protein
RA	1,091,304	T→C	D70G (GAC→GGC)	ycdS ←	putative outer membrane protein
RA	1,095,766	(T)7→8	coding (701/987 nt)	ycdU →	hypothetical protein
RA	1,096,260	(G)7→8	intergenic (+208/+528)	ycdU → / ← serX	hypothetical protein/tRNA‑Ser
RA	1,096,622	(G)7→8	intergenic (+570/+166)	ycdU → / ← serX	hypothetical protein/tRNA‑Ser
RA	1,096,810	A→G	noncoding (66/88 nt)	serX ←	tRNA‑Ser
RA	1,098,623	T→C	R174R (CGT→CGC)	ycdX →	hypothetical protein
RA	1,099,277	T→C	Y139H (TAT→CAT)	ycdY →	putative oxidoreductase component
RA	1,102,451	A→G	intergenic (‑32/+435)	csgD ← / ← b4518	CsgD/hypothetical protein
RA	1,107,299	A→G	V289A (GTG→GCG)	ymdD ←	hypothetical protein
RA	1,116,479	A→G	A150A (GCA→GCG)	yceA →	hypothetical protein
RA	1,117,607	A→G	G31G (GGT→GGC)	yceI ←	hypothetical protein
RA	1,125,352	T→C	W190R (TGG→CGG)	rimJ →	acetylation of N‑terminal alanine of 30S ribosomal subunit protein S5
RA	1,127,778	C→T	G239G (GGC→GGT)	mviN →	putative virulence factor
RA	1,132,875	T→C	L360P (CTG→CCG)	flgE →	hook protein
RA	1,136,396	A→G	G301G (GGA→GGG)	flgI →	FlgI
RA	1,138,203	A→G	Q201Q (CAA→CAG)	flgK →	hook‑filament junction protein 1
RA	1,143,435	A→G	S52S (AGT→AGC)	rne ←	RNase E
RA	1,144,672	A→G	K170K (AAA→AAG)	yceC →	hypothetical protein
RA	1,145,923	T→C	intergenic (‑66/‑94)	yceF ← / → yceD	hypothetical protein/hypothetical protein
RA	1,147,973	T→C	intergenic (+59/‑9)	plsX → / → fabH	PlsX/3‑oxoacyl‑[acyl‑carrier‑protein] synthase III
RA	1,150,932	A→G	D32G (GAC→GGC)	acpP →	acyl carrier protein
RA	1,159,128	A→G	R549R (CGT→CGC)	fhuE ←	outer membrane receptor for ferric iron uptake
RA	1,167,731	T→C	T109A (ACC→GCC)	ycfQ ←	hypothetical protein
RA	1,168,777	A→G	L274P (CTG→CCG)	ycfS ←	hypothetical protein
RA	1,170,138	A→G	I1017T (ATC→ACC)	mfd ←	transcription‑repair coupling mutation frequency decline
RA	1,173,983	C→T	G136R (GGG→AGG)	ycfT ←	hypothetical protein
RA	1,174,548	(G)5→6	intergenic (‑160/‑102)	ycfT ← / → ycfU	hypothetical protein/hypothetical protein
RA	1,175,527	A→G	K293R (AAG→AGG)	ycfU →	hypothetical protein
RA	1,181,855	G→A	Y66Y (TAC→TAT)	potD ←	spermidine/putrescine periplasmic transport protein
RA	1,184,484	A→G	F112L (TTT→CTT)	potA ←	ATP‑binding component of spermidine/putrescine transport
RA	1,185,646	A→G	T194A (ACT→GCT)	pepT →	putative peptidase T
RA	1,186,123	C→T	R353C (CGC→TGC)	pepT →	putative peptidase T
RA	1,202,768	A→G	D97G (GAT→GGT)	ymfL →	hypothetical protein
RA	1,208,641	T→C	I81V (ATT→GTT)	b1157 ←	putative tail fiber protein
RA	1,209,664	(G)5→6	coding (96/834 nt)	mcrA →	McrA
RA	1,216,420	A→G	intergenic (+201/‑89)	ymgC → / → b1168	hypothetical protein/putative proteases
RA	1,220,610	A→G	E61G (GAG→GGG)	b1170 →	putative part of putative ATP‑binding component of a transport system
RA	1,222,734	T→C	intergenic (‑583/‑184)	b1172 ← / → b1173	hypothetical protein/hypothetical protein
RA	1,225,655	A→G	intergenic (‑352/‑168)	minC ← / → ycgJ	cell division inhibitor/hypothetical protein
RA	1,226,344	C→T	A118T (GCC→ACC)	ycgK ←	hypothetical protein
RA	1,230,143	T→C	Y52H (TAC→CAC)	umuD →	UmuD
RA	1,230,972	A→G	G188G (GGA→GGG)	umuC →	UmuC
RA	1,233,892	A→G	S17P (TCC→CCC)	nhaB ←	Na+/H+ antiporter, pH independent
RA	1,237,387	A→G	G198G (GGA→GGG)	dadA →	D‑amino acid dehydrogenase subunit
RA	1,237,781	A→G	T330A (ACG→GCG)	dadA →	D‑amino acid dehydrogenase subunit
RA	1,237,963	C→T	S390S (TCC→TCT)	dadA →	D‑amino acid dehydrogenase subunit
RA	1,243,418	T→C	V111V (GTA→GTG)	ycgR ←	hypothetical protein
RA	1,247,901	T→C	D147G (GAC→GGC)	ycgC ←	putative PTS system enzyme I/IIA/HPr
RA	1,249,670	A→G	V131A (GTC→GCC)	b1200 ←	putative dihydroxyacetone kinase
RA	1,261,945	A→G	R52R (CGT→CGC)	ychB ←	hypothetical protein
RA	1,263,021	G→A	D29N (GAT→AAT)	hemA →	HemA
RA	1,273,390	T→C	R81R (CGT→CGC)	ychP →	putative factor
RA	1,279,780	T→C	W232R (TGG→CGG)	narG →	nitrate reductase 1 alpha subunit
RA	1,280,531	A→G	Y482C (TAC→TGC)	narG →	nitrate reductase 1 alpha subunit
RA	1,289,543	T→C	F27L (TTT→CTT)	hnr →	Hnr
RA	1,291,867	A→G	R93R (CGT→CGC)	hns ←	DNA‑binding protein HLP‑II
RA	1,293,354	A→G	H202R (CAT→CGT)	tdk →	thymidine kinase
RA	1,293,679	A→G	P187P (CCT→CCC)	ychG ←	hypothetical protein
RA	1,298,928	A→G	intergenic (+460/‑278)	ychE → / → oppA	putative channel protein/OppA
RA	1,301,617	T→C	V232A (GTG→GCG)	oppB →	oligopeptide transport permease protein
RA	1,302,782	A→G	N2S (AAC→AGC)	oppD →	OppD
RA	1,303,961	A→G	E58E (GAA→GAG)	oppF →	OppF
RA	1,310,470	A→G	F149L (TTT→CTT)	yciB ←	hypothetical protein
RA	1,316,595	(C)6→5	coding (1218/1362 nt)	trpC ←	N‑(5‑phosphoribosyl)anthranilate isomerase and indole‑3‑glycerolphosphate synthetase
RA	1,330,421	A→G	L450L (TTA→TTG)	topA →	DNA topoisomerase type I omega protein
RA	1,335,418	A→G	S522G (AGC→GGC)	acnA →	aconitate hydrase 1
RA	1,338,553	A→G	H96R (CAC→CGC)	yciS →	hypothetical protein
RA	1,339,624	A→G	K348R (AAG→AGG)	yciM →	putative heat shock protein
RA	1,340,692	C→T	S5F (TCC→TTC)	yciH →	hypothetical protein
RA	1,343,823	C→T	G315E (GGG→GAG)	yciR ←	hypothetical protein
RA	1,343,880	A→G	V296A (GTG→GCG)	yciR ←	hypothetical protein
RA	1,347,664	A→G	T182T (ACT→ACC)	yciW ←	putative oxidoreductase
RA	1,349,337	G→A	intergenic (‑274/+94)	fabI ← / ← ycjD	enoyl‑[acyl‑carrier‑protein] reductase (NADH)/hypothetical protein
RA	1,351,962	C→T	R194H (CGT→CAT)	sapC ←	SapC
RA	1,356,924	C→T	P96P (CCG→CCA)	ycjJ ←	putative amino acid/amine transport protein
RA	1,358,926	T→C	T3A (ACC→GCC)	b1297 ←	putative glutamine synthetase
RA	1,359,603	G→A	A150T (GCA→ACA)	ycjL →	putative amidotransferase subunit
RA	1,360,184	G→A	D84N (GAC→AAC)	ycjC →	hypothetical protein
RA	1,372,616	T→C	I168T (ATC→ACC)	ycjP →	putative transport system permease protein
RA	1,376,771	C→T	G288G (GGC→GGT)	ycjT →	hypothetical protein
RA	1,384,449	G→A	T305T (ACG→ACA)	ycjF →	hypothetical protein
RA	1,385,769	T→C	N342N (AAT→AAC)	tyrR →	TyrR
RA	1,389,803	A→G	P29P (CCT→CCC)	b1327 ←	hypothetical protein
RA	1,400,388	A→G	S298P (TCC→CCC)	b1337 ←	hypothetical protein
RA	1,405,126	T→C	M252V (ATG→GTG)	b1341 ←	hypothetical protein
RA	1,419,658	C→T	P172P (CCC→CCT)	ydaU →	hypothetical protein
RA	1,433,368	T→C	E92E (GAA→GAG)	ynaF ←	putative filament protein
RA	1,439,984	T→C	H295R (CAC→CGC)	ldhA ←	fermentative D‑lactate dehydrogenase, NAD‑dependent
RA	1,445,885	A→G	I115V (ATT→GTT)	feaB →	phenylacetaldehyde dehydrogenase
RA	1,449,800	T→C	T623A (ACC→GCC)	maoC ←	putative aldehyde dehydrogenase
RA	1,452,380	T→C	Y144H (TAT→CAT)	ydbO →	hypothetical protein
RA	1,456,531	A→G	M82V (ATG→GTG)	b1394 →	hypothetical protein
RA	1,458,752	T→C	R86R (CGT→CGC)	b1396 →	hypothetical protein
RA	1,461,082	C→T	P312S (CCA→TCA)	b1398 →	hypothetical protein
RA	1,461,874	T→C	P104P (CCT→CCC)	b1399 →	hypothetical protein
RA	1,462,362	T→C	I267T (ATT→ACT)	b1399 →	hypothetical protein
RA	1,464,084	T→C	intergenic (+999/+1861)	b1400 → / ← yi222	putative transferase/hypothetical protein
RA	1,469,753	T→C	intergenic (+1220/‑2492)	tra82 → / → ydbC	IS30 transposase/putative dehydrogenase
RA	1,472,339	(C)6→7	coding (95/861 nt)	ydbC →	putative dehydrogenase
RA	1,472,351	A→G	H36R (CAC→CGC)	ydbC →	putative dehydrogenase
RA	1,473,746	A→G	K195K (AAA→AAG)	ydbD →	hypothetical protein
RA	1,476,839	T→C	V197A (GTC→GCC)	b1409 →	putative phosphatidate cytidiltransferase
RA	1,478,094	A→G	G311G (GGA→GGG)	b1410 →	hypothetical protein
RA	1,479,250	T→C	R106R (CGT→CGC)	ynbD →	hypothetical protein
RA	1,479,655	T→C	C241C (TGT→TGC)	ynbD →	hypothetical protein
RA	1,480,081	T→C	S383S (AGT→AGC)	ynbD →	hypothetical protein
RA	1,481,285	A→G	A67A (GCA→GCG)	hrpA →	helicase, ATP‑dependent
RA	1,481,375	C→T	I97I (ATC→ATT)	hrpA →	helicase, ATP‑dependent
RA	1,482,154	T→C	V357A (GTA→GCA)	hrpA →	helicase, ATP‑dependent
RA	1,484,846	A→G	A1254A (GCA→GCG)	hrpA →	helicase, ATP‑dependent
RA	1,486,379	C→T	Q42* (CAG→TAG)	ald →	aldehyde dehydrogenase, NAD‑linked
RA	1,490,230	T→C	intergenic (‑77/‑264)	b1420 ← / → trg	hypothetical protein/methyl‑accepting chemotaxis protein III
RA	1,490,510	C→T	S6L (TCA→TTA)	trg →	methyl‑accepting chemotaxis protein III
RA	1,493,567	T→C	F86L (TTT→CTT)	b1423 →	hypothetical protein
RA	1,497,599	T→C	H292R (CAC→CGC)	b1428 ←	hypothetical protein
RA	1,498,686	C→T	A30A (GCC→GCT)	tehA →	TehA
RA	1,507,420	T→C	T18A (ACG→GCG)	b1437 ←	hypothetical protein
RA	1,507,951	A→G	intergenic (+3/‑76)	b1438 → / → b1439	hypothetical protein/hypothetical protein
RA	1,510,339	T→C	V221A (GTG→GCG)	b1440 →	putative transport protein
RA	1,529,947	C→T	A36A (GCC→GCT)	ydcC →	putative receptor
RA	1,531,361	T→C	H188R (CAT→CGT)	b1462 ←	hypothetical protein
RA	1,532,150	A→G	T35A (ACC→GCC)	b1463 →	putative N‑hydroxyarylamine O‑acetyltransferase
RA	1,533,355	G→A	A176A (GCC→GCT)	yddE ←	hypothetical protein
RA	1,533,519	T→C	T122A (ACG→GCG)	yddE ←	hypothetical protein
RA	1,535,627	A→G	R417R (CGT→CGC)	narY ←	cryptic nitrate reductase 2 beta subunit
RA	1,549,144	T→C	G220G (GGT→GGC)	fdnH →	formate dehydrogenase‑N, nitrate‑inducible, iron‑sulfur beta subunit
RA	1,549,298	T→C	L272L (TTG→CTG)	fdnH →	formate dehydrogenase‑N, nitrate‑inducible, iron‑sulfur beta subunit
RA	1,549,310	T→C	Y276H (TAC→CAC)	fdnH →	formate dehydrogenase‑N, nitrate‑inducible, iron‑sulfur beta subunit
RA	1,554,204	T→C	D34G (GAT→GGT)	b1481 ←	hypothetical protein
RA	1,561,521	C→T	S754N (AGC→AAC)	b1489 ←	hypothetical protein
RA	1,562,886	A→G	V299A (GTT→GCT)	b1489 ←	hypothetical protein
RA	1,563,111	G→A	T224M (ACG→ATG)	b1489 ←	hypothetical protein
RA	1,566,541	T→C	I103V (ATA→GTA)	b1491 ←	hypothetical protein
RA	1,567,922	A→G	F198L (TTC→CTC)	xasA ←	acid sensitivity protein
RA	1,568,848	C→T	A408T (GCC→ACC)	gadB ←	glutamate decarboxylase isozyme
RA	1,570,594	G→A	A878V (GCG→GTG)	pqqL ←	putative peptidase
RA	1,572,526	T→C	D234G (GAC→GGC)	pqqL ←	putative peptidase
RA	1,572,698	G→A	R177C (CGC→TGC)	pqqL ←	putative peptidase
RA	1,583,913	T→C	T200A (ACC→GCC)	b1501 ←	putative oxidoreductase major subunit
RA	1,587,161	T→C	I289V (ATT→GTT)	b1505 ←	putative outer membrane protein
RA	1,587,936	A→G	R30R (CGT→CGC)	b1505 ←	putative outer membrane protein
RA	1,594,520	A→G	S531P (TCC→CCC)	ydeK ←	hypothetical protein
RA	1,594,566	A→G	G515G (GGT→GGC)	ydeK ←	hypothetical protein
RA	1,594,797	(C)6→7	coding (1314/3978 nt)	ydeK ←	hypothetical protein
RA	1,596,699	T→C	Q498R (CAG→CGG)	ydeV ←	putative kinase
RA	1,596,967	A→G	L409L (TTA→CTA)	ydeV ←	putative kinase
RA	1,598,927	T→C	L113L (TTA→TTG)	ydeW ←	putative transcriptional regulator, sorC family
RA	1,599,102	T→C	H55R (CAT→CGT)	ydeW ←	putative transcriptional regulator, sorC family
RA	1,599,943	G→A	A144T (GCC→ACC)	b1513 →	putative ATP‑binding component of a transport system
RA	1,607,035	A→G	R21R (CGT→CGC)	b1520 ←	hypothetical protein
RA	1,607,710	A→G	L332P (CTT→CCT)	uxaB ←	altronate oxidoreductase
RA	1,612,018	C→T	G245D (GGT→GAT)	b1525 ←	putative aldehyde dehydrogenase
RA	1,612,901	T→C	V25A (GTG→GCG)	yneJ →	putative transcriptional regulator LYSR‑type
RA	1,616,549	A→G	S128S (AGT→AGC)	ydeB ←	hypothetical protein
RA	1,616,587	T→C	S116G (AGT→GGT)	ydeB ←	hypothetical protein
RA	1,616,692	C→T	G81S (GGC→AGC)	ydeB ←	hypothetical protein
RA	1,617,966	T→C	N125N (AAT→AAC)	marA →	MarA
RA	1,619,900	T→C	V182A (GTA→GCA)	ydeF →	putative transport protein
RA	1,620,798	Δ1 bp	intergenic (+255/+186)	ydeF → / ← ydeH	putative transport protein/hypothetical protein
RA	1,632,141	T→C	S166P (TCA→CCA)	b1545 →	hypothetical protein
RA	1,633,590	A→G	G94G (GGT→GGC)	b1547 ←	hypothetical protein
RA	1,642,279	A→G	V30A (GTC→GCC)	b1560 ←	hypothetical protein
RA	1,650,355	T→C	F274L (TTC→CTC)	b1579 →	putative transposase
RA	1,652,626	T→C	E180E (GAA→GAG)	rspA ←	starvation sensing protein
RA	1,655,245	T→C	L91L (TTA→TTG)	ynfC ←	hypothetical protein
RA	1,656,923	T→C	P277P (CCT→CCC)	b1587 →	putative oxidoreductase major subunit
RA	1,662,601	T→C	A27A (GCT→GCC)	b1591 →	putative oxidoreductase component
RA	1,662,715	A→G	T65T (ACA→ACG)	b1591 →	putative oxidoreductase component
RA	1,664,091	T→C	S271S (AGT→AGC)	b1592 →	putative chloride channel
RA	1,672,562	T→C	L209P (CTG→CCG)	b1601 →	putative transport protein
RA	1,676,843	T→C	R131R (CGT→CGC)	b1604 →	hypothetical protein
RA	1,677,885	A→G	Y102C (TAT→TGT)	b1605 →	putative arginine/ornithine antiporter
RA	1,679,054	G→A	G19S (GGC→AGC)	ydgB →	putative oxidoreductase
RA	1,680,393	T→C	W74R (TGG→CGG)	rstA →	response transcriptional regulatory protein
RA	1,680,496	(C)5→4	coding (323/729 nt)	rstA →	response transcriptional regulatory protein
RA	1,683,480	T→C	D378G (GAT→GGT)	fumC ←	fumarase C
RA	1,684,672	A→G	intergenic (‑60/+83)	fumC ← / ← fumA	fumarase C/fumarase A
RA	1,689,391	G→A	intergenic (+7/+219)	ydgA → / ← uidC	hypothetical protein/membrane‑associated protein
RA	1,689,553	A→G	intergenic (+169/+57)	ydgA → / ← uidC	hypothetical protein/membrane‑associated protein
RA	1,690,777	T→C	L29L (CTA→CTG)	uidC ←	membrane‑associated protein
RA	1,693,549	A→G	W183R (TGG→CGG)	uidA ←	beta‑D‑glucuronidase
RA	1,695,310	T→C	Q252R (CAG→CGG)	hdhA ←	NAD‑dependent 7alpha‑hydroxysteroid dehydrogenase
RA	1,698,072	C→T	R232C (CGT→TGT)	malX →	MalX
RA	1,698,875	A→G	V499V (GTA→GTG)	malX →	MalX
RA	1,701,951	T→C	S128G (AGC→GGC)	b1624 ←	hypothetical protein
RA	1,702,726	T→C	intergenic (‑394/‑247)	b1624 ← / → b1625	hypothetical protein/hypothetical protein
RA	1,703,371	T→C	L41P (CTG→CCG)	b1626 →	hypothetical protein
RA	1,705,521	C→T	V193V (GTC→GTT)	b1629 →	putative membrane protein
RA	1,710,773	A→G	intergenic (+591/‑20)	nth → / → ydgR	endonuclease III/putative transport protein
RA	1,712,211	A→G	V473V (GTA→GTG)	ydgR →	putative transport protein
RA	1,712,350	(T)9→8	intergenic (+55/‑51)	ydgR → / → gst	putative transport protein/glutathionine S‑transferase
RA	1,713,565	G→A	H117Y (CAT→TAT)	pdxY ←	pyridoxal kinase 2
RA	1,713,746	C→T	P56P (CCG→CCA)	pdxY ←	pyridoxal kinase 2
RA	1,714,480	A→G	F256S (TTC→TCC)	tyrS ←	tyrosine tRNA synthetase
RA	1,716,150	A→G	T88T (ACT→ACC)	ydhA ←	hypothetical protein
RA	1,718,074	T→C	S59P (TCC→CCC)	slyB →	putative outer membrane protein
RA	1,718,191	A→G	T98A (ACT→GCT)	slyB →	putative outer membrane protein
RA	1,721,938	A→G	V598V (GTA→GTG)	b1645 →	hypothetical protein
RA	1,722,918	T→A	N247Y (AAC→TAC)	b1647 ←	hypothetical protein
RA	1,723,269	G→A	P130S (CCA→TCA)	b1647 ←	hypothetical protein
RA	1,725,518	(G)6→5	coding (836/1098 nt)	nemA →	N‑ethylmaleimide reductase
RA	1,727,504	A→G	T132A (ACT→GCT)	lhr →	Lhr
RA	1,729,644	T→C	M845T (ATG→ACG)	lhr →	Lhr
RA	1,731,175	T→C	R1355R (CGT→CGC)	lhr →	Lhr
RA	1,733,584	A→G	E61E (GAA→GAG)	sodB →	superoxide dismutase, iron
RA	1,736,520	A→G	Q218R (CAG→CGG)	purR →	PurR
RA	1,738,433	T→C	F167L (TTT→CTT)	ydhC →	putative transport protein
RA	1,739,051	A→G	M373V (ATG→GTG)	ydhC →	putative transport protein
RA	1,741,574	2 bp→GA	coding (94‑95/1374 nt)	ydhE →	putative transport protein
RA	1,748,779	(A)6→7	coding (310/720 nt)	b1671 ←	putative oxidoreductase Fe‑S subunit
RA	1,749,762	A→G	L698P (CTG→CCG)	b1673 ←	hypothetical protein
RA	1,749,776	T→C	A693A (GCA→GCG)	b1673 ←	hypothetical protein
RA	1,750,491	T→C	Y455C (TAC→TGC)	b1673 ←	hypothetical protein
RA	1,751,328	A→G	M176T (ATG→ACG)	b1673 ←	hypothetical protein
RA	1,751,393	G→A	T154T (ACC→ACT)	b1673 ←	hypothetical protein
RA	1,753,749	A→G	I10V (ATC→GTC)	pykF →	pyruvate kinase I
RA	1,756,526	A→G	V75A (GTG→GCG)	ynhG ←	hypothetical protein
RA	1,757,874	T→C	H225R (CAT→CGT)	b1680 ←	hypothetical protein
RA	1,758,261	T→C	E96G (GAA→GGA)	b1680 ←	hypothetical protein
RA	1,759,194	C→T	A208T (GCA→ACA)	ynhC ←	hypothetical protein
RA	1,762,307	T→C	Q35R (CAG→CGG)	ydiC ←	hypothetical protein
RA	1,765,691	A→G	V340A (GTG→GCG)	ydiJ ←	putative oxidase
RA	1,768,647	T→C	A12A (GCT→GCC)	b1689 →	hypothetical protein
RA	1,772,080	G→A	A90T (GCC→ACC)	ydiB →	putative oxidoreductase
RA	1,776,008	T→C	Y264Y (TAT→TAC)	b1695 →	putative oxidoreductase
RA	1,776,191	T→C	R325R (CGT→CGC)	b1695 →	putative oxidoreductase
RA	1,778,478	T→C	A18A (GCT→GCC)	ydiR →	putative flavoprotein
RA	1,779,462	T→C	V15A (GTT→GCT)	ydiS →	YdiS
RA	1,787,068	G→A	A204T (GCC→ACC)	aroH →	3‑deoxy‑D‑arabinoheptulosonate‑7‑phosphate synthase
RA	1,787,410	A→G	T318A (ACT→GCT)	aroH →	3‑deoxy‑D‑arabinoheptulosonate‑7‑phosphate synthase
RA	1,788,045	A→G	S408S (AGT→AGC)	b1706 ←	hypothetical protein
RA	1,789,986	T→C	D20G (GAC→GGC)	b1707 ←	hypothetical protein
RA	1,791,298	T→C	T95T (ACA→ACG)	btuD ←	ATP‑binding component of vitamin B12 transport system
RA	1,791,400	T→C	Q61Q (CAA→CAG)	btuD ←	ATP‑binding component of vitamin B12 transport system
RA	1,793,668	A→G	R767R (CGT→CGC)	pheT ←	phenylalanine tRNA synthetase beta‑subunit
RA	1,799,569	G→A	N342N (AAC→AAT)	thrS ←	threonine tRNA synthetase
RA	1,808,078	A→G	intergenic (+6/‑157)	yniC → / → b1728	putative phosphatase/hypothetical protein
RA	1,812,482	T→C	F198L (TTC→CTC)	katE →	catalase
RA	1,826,476	T→C	N428S (AAC→AGC)	b1746 ←	putative aldehyde dehydrogenase
RA	1,827,618	A→G	R47R (CGT→CGC)	b1746 ←	putative aldehyde dehydrogenase
RA	1,830,747	T→C	L99P (CTG→CCG)	xthA →	exonuclease III
RA	1,837,903	A→G	K138R (AAA→AGA)	b1757 →	putative thiosulfate sulfur transferase
RA	1,839,484	A→G	intergenic (‑51/‑30)	b1758 ← / → b1759	putative cytochrome oxidase/hypothetical protein
RA	1,839,782	A→G	H90R (CAC→CGC)	b1759 →	hypothetical protein
RA	1,840,986	G→A	G198S (GGC→AGC)	gdhA →	NADP‑specific glutamate dehydrogenase
RA	1,841,661	A→G	T423A (ACC→GCC)	gdhA →	NADP‑specific glutamate dehydrogenase
RA	1,845,852	T→C	T61A (ACC→GCC)	selD ←	selenophosphate synthase
RA	1,847,298	A→G	K146K (AAA→AAG)	sppA →	protease IV
RA	1,854,076	T→C	S293G (AGC→GGC)	b1772 ←	putative kinase
RA	1,855,054	T→C	Q247R (CAG→CGG)	b1773 ←	putative aldolase
RA	1,858,325	A→G	D344D (GAT→GAC)	b1776 ←	putative oxidoreductase
RA	1,860,370	T→C	E28E (GAA→GAG)	yeaA ←	hypothetical protein
RA	1,863,065	G→A	A199V (GCC→GTC)	b1781 ←	putative aldehyde reductase
RA	1,865,007	A→G	T26A (ACC→GCC)	yeaG →	hypothetical protein
RA	1,865,362	T→C	V144A (GTC→GCC)	yeaG →	hypothetical protein
RA	1,871,984	A→G	E129E (GAA→GAG)	yeaK →	hypothetical protein
RA	1,874,785	T→C	G363G (GGT→GGC)	yeaN →	putative amino acid/amine transport protein
RA	1,877,795	T→C	S60G (AGT→GGT)	yeaR ←	hypothetical protein
RA	1,890,225	C→T	R345R (CGG→CGA)	b1808 ←	hypothetical protein
RA	1,892,514	T→C	intergenic (+58/+62)	b1810 → / ← b1811	hypothetical protein/hypothetical protein
RA	1,895,346	G→A	A131T (GCC→ACC)	sdaA →	L‑serine deaminase
RA	1,903,264	T→C	L147P (CTT→CCT)	b1820 →	hypothetical protein
RA	1,904,576	G→A	P170L (CCC→CTC)	yebH ←	hypothetical protein
RA	1,908,347	T→C	G16G (GGT→GGC)	b1828 →	putative transport protein
RA	1,909,255	T→C	V319A (GTG→GCG)	b1828 →	putative transport protein
RA	1,917,590	T→C	V688A (GTC→GCC)	b1834 →	hypothetical protein
RA	1,919,873	G→A	D24N (GAT→AAT)	b1836 →	hypothetical protein
RA	1,920,485	T→C	E170G (GAA→GGA)	b1838 ←	protein phosphatase 1
RA	1,920,902	T→C	Q31R (CAG→CGG)	b1838 ←	protein phosphatase 1
RA	1,923,118	T→C	intergenic (‑125/‑14)	b1841 ← / → holE	hypothetical protein/DNA polymerase III theta subunit
RA	1,923,720	T→C	V86A (GTT→GCT)	b1843 →	hypothetical protein
RA	1,924,185	A→G	G14G (GGA→GGG)	b1844 →	hypothetical protein
RA	1,928,564	T→C	T70A (ACC→GCC)	yebG ←	hypothetical protein
RA	1,930,097	(A)7→6	intergenic (+14/+42)	purT → / ← eda	phosphoribosylglycinamide formyltransferase 2/2‑keto‑3‑deoxygluconate 6‑phosphate aldolase
RA	1,938,811	T→C	G262G (GGA→GGG)	yebA ←	hypothetical protein
RA	1,941,713	T→C	S92S (AGT→AGC)	yebI →	hypothetical protein
RA	1,953,902	T→C	Q377R (CAG→CGG)	b1872 ←	biotin sulfoxide reductase 2
RA	1,957,451	T→C	L140L (CTA→CTG)	b1875 ←	hypothetical protein
RA	1,958,588	T→C	M168T (ATG→ACG)	argS →	arginine tRNA synthetase
RA	1,962,070	A→T	P335P (CCT→CCA)	flhA ←	FlhA
RA	1,962,105	C→T	A324T (GCC→ACC)	flhA ←	FlhA
RA	1,972,288	G→A	T354M (ACG→ATG)	cheA ←	CheA
RA	1,973,518	A→T	D254E (GAT→GAA)	motB ←	MotB
RA	1,973,993	T→C	E96G (GAA→GGA)	motB ←	MotB
RA	1,974,585	A→G	R193R (CGT→CGC)	motA ←	MotA
RA	1,975,051	G→A	A38V (GCC→GTC)	motA ←	MotA
MC JC	1,976,527	Δ776 bp		insB5–insA5	insB5, insA5
RA	1,980,940	+C	coding (1/363 nt) coding (627/627 nt)	araH ← araH ←	ABC‑type arabinose transport system permease component ABC‑type arabinose transport system permease component
RA	1,983,543	(C)5→4	coding (609/990 nt)	araF ←	L‑arabinose‑binding periplasmic protein
RA	1,983,890	T→C	T88A (ACT→GCT)	araF ←	L‑arabinose‑binding periplasmic protein
RA	1,987,280	A→G	R78R (CGT→CGC)	yecH ←	hypothetical protein
RA	1,990,664	A→G	S59S (AGT→AGC)	pgsA ←	phosphatidylglycerophosphate synthetase
RA	1,990,667	C→T	Q58Q (CAG→CAA)	pgsA ←	phosphatidylglycerophosphate synthetase
RA	1,998,039	A→G	Y124H (TAC→CAC)	fliY ←	putative periplasmic binding transport protein
RA	1,999,772	T→C	H4R (CAC→CGC)	b1922 ←	sigma factor 28
RA	2,008,480	+A	coding (637/654 nt)	yedK →	hypothetical protein
RA	2,013,946	G→A	Q26Q (CAG→CAA)	fliH →	FliH
RA	2,017,469	G→A	T354T (ACG→ACA)	fliK →	flagellar hook‑length control protein
RA	2,025,930	G→A	S42F (TCC→TTC)	b1956 ←	hypothetical protein
RA	2,026,680	T→C	T237A (ACG→GCG)	yedI ←	hypothetical protein
RA	2,028,708	A→G	V78A (GTG→GCG)	vsr ←	DNA mismatch endonuclease
RA	2,037,676	(C)5→6	coding (177/1005 nt)	b1971 →	putative reductase
RA	2,038,998	A→G	Y165C (TAT→TGT)	b1972 →	hypothetical protein
RA	2,043,272	A→G	S130G (AGT→GGT)	b1978 →	hypothetical protein
RA	2,044,033	(C)5→6	coding (1149/7152 nt)	b1978 →	hypothetical protein
RA	2,063,222	A→G	M8T (ATG→ACG)	cobS ←	cobalamin 5'‑phosphate synthase
RA	2,063,343	T→C	A148A (GCA→GCG)	cobU ←	cobinamide kinase/cobinamide phosphate guanylyltransferase
RA	2,066,300	T→C	intergenic (‑957/‑330)	trs56 ← / → b1995	IS5 transposase/hypothetical protein
RA	2,069,029	T→C	S169S (AGT→AGC)	yeeP →	putative histone
RA	2,071,598	A→G	R680G (AGG→GGG)	b2000 →	outer membrane fluffing protein
RA	2,072,030	T→A	C824S (TGC→AGC)	b2000 →	outer membrane fluffing protein
RA	2,072,384	(C)6→5	coding (2824/3120 nt)	b2000 →	outer membrane fluffing protein
RA	2,074,245	T→C	M484T (ATG→ACG)	b2001 →	hypothetical protein
RA	2,074,403	T→C	V25A (GTG→GCG)	yeeS →	putative DNA repair protein, RADC family
RA	2,075,196	(G)5→4	coding (63/369 nt)	yeeU →	putative structural protein
RA	2,078,049	A→G	F189L (TTC→CTC)	yeeA ←	hypothetical protein
RA	2,078,857	T→C	Y143C (TAC→TGC)	sbmC ←	SbmC
RA	2,081,054	A→G	T93A (ACC→GCC)	sbcB →	exonuclease I
RA	2,088,609	T→C	P132P (CCT→CCC)	hisG →	ATP phosphoribosyltransferase
RA	2,089,888	T→C	L257P (CTC→CCC)	hisD →	L‑histidinal:NAD+ oxidoreductase
RA	2,092,192	A→G	T235A (ACC→GCC)	b2022 →	imidazoleglycerolphosphate dehydratase
RA	2,094,539	T→C	V225A (GTT→GCT)	hisF →	imidazole glycerol phosphate synthase holoenzyme
RA	2,097,074	T→C	T188A (ACC→GCC)	ugd ←	UDP‑glucose 6‑dehydrogenase
RA	2,106,960	T→C	D216G (GAC→GGC)	rfbX ←	putative O‑antigen transporter
RA	2,107,690	C→T	W157* (TGG→TGA)	rfbC ←	dTDP‑6‑deoxy‑D‑glucose‑3,5 epimerase
RA	2,108,194	T→C	Q283R (CAG→CGG)	rfbA ←	glucose‑1‑phosphate thymidylyltransferase
RA	2,109,166	A→G	V278A (GTC→GCC)	rfbD ←	dTDP‑6‑deoxy‑L‑mannose‑dehydrogenase
RA	2,110,628	T→C	L152L (TTA→TTG)	rfbB ←	dTDP‑glucose 4,6 dehydratase
RA	2,111,589	A→G	M254T (ATG→ACG)	galF ←	putative a UDP‑gal transferase
RA	2,111,654	T→C	A232A (GCA→GCG)	galF ←	putative a UDP‑gal transferase
RA	2,115,180	T→C	Q416R (CAG→CGG)	wcaK ←	putative galactokinase
RA	2,123,880	T→C	Q123R (CAG→CGG)	wcaH ←	GDP‑mannose mannosyl hydrolase
RA	2,133,804	T→C	H106R (CAC→CGC)	wzb ←	putative protein‑tyrosine‑phosphatase
RA	2,143,530	T→C	L748P (CTG→CCG)	yegE →	putative sensor‑type protein
RA	2,151,093	A→G	C20R (TGC→CGC)	b2073 ←	hypothetical protein
RA	2,153,900	+C	coding (616/3123 nt)	yegN →	hypothetical protein
RA	2,154,412	G→A	P376P (CCG→CCA)	yegN →	hypothetical protein
RA	2,162,354	A→G	E19E (GAA→GAG)	baeR →	BaeR
RA	2,163,496	T→C	S96P (TCC→CCC)	b2080 →	hypothetical protein
RA	2,164,290	T→C	Y201H (TAC→CAC)	yegQ →	hypothetical protein
RA	2,165,874	T→C	L50L (TTA→TTG)	b2084 ←	hypothetical protein
RA	2,170,345	C→T	G184E (GGA→GAA)	gatD ←	galactitol‑1‑phosphate dehydrogenase
RA	2,172,208	T→C	M31V (ATG→GTG)	gatC ←	PTS system galactitol‑specific enzyme IIC
RA	2,183,895	(G)7→9	intergenic (‑79/‑42)	yohL ← / → yohM	hypothetical protein/hypothetical protein
RA	2,185,017	Δ1 bp	coding (38/339 nt)	b2107 →	hypothetical protein
RA	2,185,099	T→C	S40S (AGT→AGC)	b2107 →	hypothetical protein
RA	2,195,623	T→C	intergenic (+1270/‑2676)	metG → / → yehI	methionine tRNA synthetase/putative regulator
RA	2,204,258	T→C	W182R (TGG→CGG)	yehM →	hypothetical protein
RA	2,207,023	A→G	D346G (GAC→GGC)	yehP →	hypothetical protein
RA	2,208,197	A→C	T360P (ACC→CCC)	b2122 →	hypothetical protein
RA	2,208,331	A→G	S404S (TCA→TCG)	b2122 →	hypothetical protein
RA	2,208,505	G→A	R462R (CGG→CGA)	b2122 →	hypothetical protein
RA	2,209,048	A→G	intergenic (+84/‑185)	b2122 → / → yehR	hypothetical protein/hypothetical protein
RA	2,210,781	T→C	M68V (ATG→GTG)	b2125 ←	hypothetical protein
RA	2,216,746	G→C	S252S (TCC→TCG)	yehZ ←	putative transport system permease protein
RA	2,223,632	A→G	L15P (CTG→CCG)	yohC ←	hypothetical protein
RA	2,225,197	T→C	T32A (ACC→GCC)	yohF ←	putative oxidoreductase
RA	2,246,351	T→C	S68G (AGT→GGT)	lysP ←	lysine‑specific permease
RA	2,247,350	T→C	S97G (AGT→GGT)	yeiE ←	putative transcriptional regulator LYSR‑type
RA	2,250,142	T→C	R141R (CGT→CGC)	yeiI →	putative kinase
RA	2,254,317	T→C	T347A (ACG→GCG)	yeiM ←	putative transport system permease protein
RA	2,255,784	G→A	P202S (CCG→TCG)	yeiN ←	hypothetical protein
RA	2,259,839	G→A	L183L (CTG→TTG)	fruK ←	fructose‑1‑phosphate kinase
RA	2,259,919	C→T	R156H (CGC→CAC)	fruK ←	fructose‑1‑phosphate kinase
RA	2,261,454	G→A	A21V (GCG→GTG)	fruB ←	PTS system, fructose‑specific IIA/fpr component
RA	2,264,802	T→C	F180L (TTT→CTT)	yeiQ →	putative oxidoreductase
RA	2,265,885	A→G	S13G (AGC→GGC)	yeiR →	hypothetical protein
RA	2,268,593	T→C	intergenic (+28/‑153)	spr → / → rtn	putative lipoprotein/hypothetical protein
RA	2,276,343	T→C	intergenic (‑86/+247)	yejG ← / ← bcr	hypothetical protein/bicyclomycin resistance protein
RA	2,281,515	A→G	R151R (CGT→CGC)	yejK ←	hypothetical protein
RA	2,281,741	T→C	D76G (GAC→GGC)	yejK ←	hypothetical protein
RA	2,284,989	(C)5→4	coding (1932/2511 nt)	yejO ←	putative ATP‑binding component of a transport system
RA	2,289,112	T→C	V198A (GTC→GCC)	narP →	nitrate/nitrite response regulator
RA	2,289,578	G→A	L285L (CTG→TTG)	ccmH ←	CcmH
RA	2,290,493	A→G	N164N (AAT→AAC)	dsbE ←	disulfide oxidoreductase
RA	2,296,123	T→C	T53A (ACC→GCC)	napC ←	cytochrome c‑type protein
RA	2,297,335	A→G	G88G (GGT→GGC)	napH ←	ferredoxin‑type protein: electron transfer
RA	2,299,266	T→C	N503S (AAC→AGC)	napA ←	putative nitrate reductase 3
RA	2,306,256	T→C	E127G (GAA→GGA)	yojI ←	putative ATP‑binding component of a transport system
RA	2,309,476	C→T	A27T (GCC→ACC)	yojL ←	hypothetical protein
RA	2,311,335	(T)5→4	intergenic (‑566/‑173)	ompC ← / → yojN	outer membrane protein 1b (Ib;c)/putative 2‑component sensor protein
RA	2,317,837	T→C	A4A (GCA→GCG)	rcsC ←	RcsC
RA	2,321,092	G→A	A403T (GCC→ACC)	atoC →	ornithine decarboxylase antizyme
RA	2,324,469	(G)6→7	coding (341/1185 nt)	atoB →	acetyl‑CoA acetyltransferase
RA	2,325,759	A→G	G135G (GGT→GGC)	b2225 ←	hypothetical protein
RA	2,327,687	A→G	V44A (GTG→GCG)	b2226 ←	hypothetical protein
RA	2,330,191	A→G	intergenic (‑2374/+2165)	b2226 ← / ← b2229	hypothetical protein/hypothetical protein
RA	2,331,739	A→G	intergenic (‑3922/+617)	b2226 ← / ← b2229	hypothetical protein/hypothetical protein
RA	2,342,280	T→C	intergenic (‑91/‑605)	yfaL ← / → nrdA	putative ATP‑binding component of a transport system/ribonucleoside diphosphate reductase 1 alpha subunit, B1
RA	2,343,154	T→C	R90R (CGT→CGC)	nrdA →	ribonucleoside diphosphate reductase 1 alpha subunit, B1
RA	2,343,608	A→G	S242G (AGC→GGC)	nrdA →	ribonucleoside diphosphate reductase 1 alpha subunit, B1
RA	2,345,161	T→C	C759C (TGT→TGC)	nrdA →	ribonucleoside diphosphate reductase 1 alpha subunit, B1
RA	2,349,989	T→C	M136V (ATG→GTG)	glpT ←	sn‑glycerol‑3‑phosphate permease
RA	2,360,682	T→C	A324A (GCA→GCG)	b2249 ←	hypothetical protein
RA	2,362,769	G→A	E66K (GAA→AAA)	yfaO →	hypothetical protein
RA	2,365,769	T→C	C227R (TGC→CGC)	b2254 →	putative sugar transferase
RA	2,370,869	C→T	A98V (GCG→GTG)	b4533 →	hypothetical protein
RA	2,370,890	T→C	V105A (GTG→GCG)	b4533 →	hypothetical protein
RA	2,375,871	T→C	N470S (AAC→AGC)	menD ←	2‑oxoglutarate decarboxylase
RA	2,387,335	T→C	V68A (GTA→GCA)	b2275 →	hypothetical protein
RA	2,391,348	A→G	A573A (GCT→GCC)	nuoL ←	NADH dehydrogenase I chain L
RA	2,392,487	T→C	T194A (ACC→GCC)	nuoL ←	NADH dehydrogenase I chain L
RA	2,393,734	A→G	G61G (GGT→GGC)	nuoJ ←	NADH dehydrogenase I chain J
RA	2,406,831	A→G	intergenic (+33/‑51)	b2290 → / → b2291	putative aminotransferase/putative alpha helix protein
RA	2,409,290	G→A	A28V (GCG→GTG)	yfbS ←	putative transport protein
RA	2,409,738	T→C	A130A (GCA→GCG)	yfbT ←	putative phosphatase
RA	2,413,512	T→C	I249T (ATC→ACC)	pta →	phosphotransacetylase
RA	2,417,813	T→C	intergenic (‑8/+48)	b2300 ← / ← yfcF	hypothetical protein/hypothetical protein
JC	2,419,010	(C)6→9	coding (370/648 nt)	yfcG →	putative S‑transferase
RA	2,419,074	A→G	N145S (AAC→AGC)	yfcG →	putative S‑transferase
RA	2,425,773	A→G	G13G (GGT→GGC)	argT ←	ArgT
RA	2,429,483	T→C	E65E (GAA→GAG)	dedD ←	putative lipoprotein
RA	2,438,697	A→C	L310R (CTG→CGG)	fabB ←	3‑oxoacyl‑[acyl‑carrier‑protein] synthase I
RA	2,442,106	A→G	S28S (AGT→AGC)	b2325 ←	hypothetical protein
RA	2,448,171	T→C	N147S (AAC→AGC)	b2333 ←	putative fimbrial‑like protein
RA	2,448,289	C→T	A108T (GCA→ACA)	b2333 ←	putative fimbrial‑like protein
RA	2,448,480	G→A	A44V (GCG→GTG)	b2333 ←	putative fimbrial‑like protein
RA	2,449,280	T→C	T109A (ACC→GCC)	b2335 ←	putative fimbrial protein
RA	2,458,272	(G)5→4	coding (218/1311 nt)	b2342 ←	putative acyltransferase
RA	2,458,650	+G	intergenic (‑161/+20)	b2342 ← / ← b2343	putative acyltransferase/hypothetical protein
RA	2,459,210	A→G	intergenic (‑232/‑110)	b2343 ← / → fadL	hypothetical protein/FadL
RA	2,461,706	T→C	S225S (AGT→AGC)	b2345 →	hypothetical protein
RA	2,464,010	T→C	H230H (CAT→CAC)	yfdC →	putative transport
RA	2,465,657	T→C	Y365H (TAT→CAT)	intC →	putative prophage Sf6‑like integrase
RA	2,469,173	T→C	D122G (GAC→GGC)	b2354 ←	hypothetical protein
RA	2,470,298	A→G	I37T (ATT→ACT)	b2356 ←	hypothetical protein
RA	2,472,861	T→C	G270G (GGT→GGC)	b2360 →	hypothetical protein
RA	2,476,636	G→A	G257D (GGT→GAT)	dsdX →	transport system permease
RA	2,487,208	(A)6→5	coding (20/1185 nt)	yfdE ←	hypothetical protein
RA	2,488,381	A→G	I530I (ATT→ATC)	b2373 ←	hypothetical protein
RA	2,501,888	+C	coding (618/2496 nt)	b2383 ←	putative PTS system enzyme IIA component, enzyme I
RA	2,505,495	C→T	Q140Q (CAG→CAA)	b2386 ←	putative transport protein
RA	2,515,312	T→C	M181V (ATG→GTG)	b2395 ←	hypothetical protein
RA	2,519,341	A→G	noncoding (69/76 nt)	lysV →	tRNA‑Lys
RA	2,519,941	G→A	S186F (TCC→TTC)	xapR ←	XapR
RA	2,531,984	C→T	G67G (GGC→GGT)	ptsH →	PTS system protein HPr
RA	2,532,993	A→G	D303G (GAC→GGC)	ptsI →	PEP‑protein phosphotransferase system enzyme I
RA	2,534,957	A→G	S101P (TCG→CCG)	pdxK ←	pyridoxal/pyridoxine/pyridoxamine kinase
RA	2,536,964	T→C	T214A (ACG→GCG)	cysM ←	cysteine synthase B
RA	2,545,308	G→A	A206T (GCA→ACA)	b2429 →	putative PTS enzyme II
RA	2,552,312	T→C	V297V (GTA→GTG)	yfeG ←	putative ARAC‑type regulatory protein
RA	2,555,272	A→G	S16P (TCA→CCA)	eutC ←	ethanolamine ammonia‑lyase, light chain
RA	2,556,088	G→A	R204R (CGC→CGT)	b2441 ←	ethanolamine ammonia‑lyase, heavy chain
RA	2,557,200	T→C	V137A (GTG→GCG)	b2442 →	putative prophage integrase
RA	2,559,003	G→A	intergenic (+85/‑385)	b2443 → / → b2444	hypothetical protein/hypothetical protein
RA	2,560,887	T→C	V115A (GTG→GCG)	b2447 →	hypothetical protein
RA	2,561,503	A→G	intergenic (+366/‑94)	b2447 → / → b2448	hypothetical protein/hypothetical protein
RA	2,562,351	G→A	G118S (GGC→AGC)	b2449 →	hypothetical protein
RA	2,563,585	(C)5→6	coding (1320/1404 nt)	b2451 ←	hypothetical protein
RA	2,574,803	A→G	L532P (CTG→CCG)	b2463 ←	putative multimodular enzyme
RA	2,579,447	T→C	S598P (TCG→CCG)	tktB →	transketolase 2 isozyme
RA	2,582,538	A→G	G336G (GGT→GGC)	yffG ←	putative oxidoreductase Fe‑S subunit
RA	2,583,799	(T)7→6	coding (49/1701 nt)	narQ →	NarQ
RA	2,585,045	T→C	L432P (CTC→CCC)	narQ →	NarQ
RA	2,585,577	G→A	intergenic (+126/‑38)	narQ → / → acrD	NarQ/AcrD
RA	2,586,558	A→G	Q315R (CAG→CGG)	acrD →	AcrD
RA	2,590,989	T→C	intergenic (+7/+103)	b4537 → / ← ypfH	hypothetical protein/hypothetical protein
RA	2,596,487	T→C	Q133Q (CAA→CAG)	nlpB ←	lipoprotein‑34
RA	2,597,825	A→G	intergenic (‑45/‑101)	dapA ← / → b2479	dihydrodipicolinate synthase/GcvR
RA	2,599,388	A→G	E56E (GAA→GAG)	b2481 →	hydrogenase 4 Fe‑S subunit
RA	2,600,843	G→A	V336I (GTT→ATT)	hyfB →	hydrogenase 4 membrane subunit
RA	2,613,076	T→C	T276A (ACT→GCT)	perM ←	putative permease
RA	2,621,188	A→G	Y42C (TAT→TGT)	ppk →	polyphosphate kinase
RA	2,630,942	T→C	K383K (AAA→AAG)	guaB ←	IMP dehydrogenase
RA	2,631,832	(T)6→5	coding (259/1467 nt)	guaB ←	IMP dehydrogenase
RA	2,644,603	(G)6→5	coding (743/2313 nt)	pbpC ←	putative peptidoglycan enzyme
RA	2,645,360	T→C	I1650V (ATT→GTT)	b2520 ←	hypothetical protein
RA	2,647,298	T→C	T1004A (ACG→GCG)	b2520 ←	hypothetical protein
RA	2,651,930	T→C	intergenic (+571/+247)	b2521 → / ← b2522	putative thiosulfate sulfur transferase/enhanced serine sensitivity
RA	2,655,220	T→C	D579G (GAC→GGC)	hscA ←	HscA
RA	2,661,865	T→A	L135Q (CTG→CAG)	suhB →	SuhB
RA	2,665,031	A→G	V279A (GTG→GCG)	hcaT ←	HcaT
RA	2,666,143	A→G	I258I (ATT→ATC)	hcaR ←	HcaR
RA	2,668,370	T→C	V440A (GTG→GCG)	hcaA1 →	large terminal subunit of phenylpropionate dioxygenase
RA	2,669,800	T→C	C186R (TGT→CGT)	hcaB →	2,3‑dihydroxy‑2,3‑dihydrophenylpropionate dehydrogenase
RA	2,673,594	T→C	Y74C (TAC→TGC)	yphC ←	putative oxidoreductase
RA	2,675,068	T→C	E438E (GAA→GAG)	yphE ←	putative ATP‑binding component of a transport system
RA	2,690,602	T→C	T988A (ACT→GCT)	purL ←	phosphoribosylformyl‑glycineamide synthetase
RA	2,691,024	A→T	F847Y (TTT→TAT)	purL ←	phosphoribosylformyl‑glycineamide synthetase
RA	2,693,606	A→G	intergenic (‑43/‑353)	purL ← / → yfhD	phosphoribosylformyl‑glycineamide synthetase/putative periplasmic binding transport protein
RA	2,694,050	A→G	Y31C (TAC→TGC)	yfhD →	putative periplasmic binding transport protein
RA	2,696,865	T→C	P53P (CCT→CCC)	yfhH →	hypothetical protein
RA	2,699,813	T→C	E226G (GAA→GGA)	recO ←	RecO
RA	2,709,363	T→C	C308C (TGT→TGC)	nadB →	quinolinate synthetase B protein
RA	2,711,991	T→C	L359P (CTG→CCG)	srmB →	ATP‑dependent RNA helicase
RA	2,718,460	T→C	I163T (ATC→ACC)	yfiQ →	hypothetical protein
RA	2,720,435	A→G	L821L (TTA→TTG)	yfiQ →	hypothetical protein
RA	2,729,373	+C	intergenic (‑195/+247)	rrsG ← / ← clpB	16S ribosomal RNA/ClpB
RA	2,732,197	T→C	intergenic (‑4/+126)	clpB ← / ← yfiH	ClpB/hypothetical protein
RA	2,732,361	T→C	T232A (ACC→GCC)	yfiH ←	hypothetical protein
RA	2,736,290	A→G	T176A (ACC→GCC)	pheA →	chorismate mutase‑P
RA	2,746,200	T→C	S73S (AGT→AGC)	b2611 →	hypothetical protein
RA	2,747,166	G→A	A117T (GCT→ACT)	b4540 →	hypothetical protein
RA	2,747,389	Δ1 bp	coding (572/591 nt)	b4540 →	hypothetical protein
RA	2,748,983	T→C	A44A (GCT→GCC)	yfjB →	hypothetical protein
RA	2,751,091	G→C	A426P (GCT→CCT)	recN →	RecN
RA	2,753,655	T→C	intergenic (+256/‑525)	smpB → / → intA	small protein B/prophage CP4‑57 integrase
RA	2,754,691	T→C	V171A (GTT→GCT)	intA →	prophage CP4‑57 integrase
RA	2,757,775	T→C	L257P (CTC→CCC)	yfjI →	hypothetical protein
RA	2,766,382	C→G	P218A (CCC→GCC)	b2632 →	putative GTP‑binding protein
RA	2,766,423	G→A	R231R (CGG→CGA)	b2632 →	putative GTP‑binding protein
RA	2,766,427	2 bp→AC	coding (697‑698/864 nt)	b2632 →	putative GTP‑binding protein
RA	2,766,473	A→G	D248G (GAT→GGT)	b2632 →	putative GTP‑binding protein
RA	2,766,475	A→G	T249A (ACC→GCC)	b2632 →	putative GTP‑binding protein
RA	2,774,233	T→C	G98G (GGT→GGC)	yfjX →	hypothetical protein
RA	2,778,911	T→C	T656A (ACT→GCT)	ypjA ←	putative ATP‑binding component of a transport system
RA	2,781,020	+G	intergenic (‑144/+65)	ypjA ← / ← b2648	putative ATP‑binding component of a transport system/hypothetical protein
RA	2,781,027	C→G	intergenic (‑151/+58)	ypjA ← / ← b2648	putative ATP‑binding component of a transport system/hypothetical protein
RA	2,785,180	Δ1 bp	coding (413/495 nt)	b2655 →	hypothetical protein
RA	2,790,474	T→C	L394P (CTG→CCG)	gabD →	succinate‑semialdehyde dehydrogenase, NADP‑dependent activity
RA	2,794,501	A→G	S103P (TCT→CCT)	ygaU ←	hypothetical protein
RA	2,796,091	A→G	intergenic (+26/+21)	ygaP → / ← stpA	hypothetical protein/StpA
RA	2,798,359	A→G	T65A (ACT→GCT)	b2672 →	hypothetical protein
RA	2,806,271	T→C	intergenic (+126/‑1367)	proX → / → b2682	high‑affinity transport system for glycine betaine and proline/hypothetical protein
RA	2,812,859	Δ1 bp	intergenic (‑105/+46)	ygaG ← / ← gshA	hypothetical protein/gamma‑glutamate‑cysteine ligase
RA	2,820,144	Δ1 bp	intergenic (+24/+18)	b4542 → / ← oraA	hypothetical protein/OraA
RA	2,822,541	T→C	Q353Q (CAA→CAG)	mltB ←	membrane‑bound lytic murein transglycosylase B
RA	2,822,574	G→A	T342T (ACC→ACT)	mltB ←	membrane‑bound lytic murein transglycosylase B
RA	2,823,915	A→G	K21E (AAG→GAG)	srlA →	PTS system, glucitol/sorbitol‑specific IIC component
RA	2,824,797	T→C	F128S (TTT→TCT)	srlE →	PTS system glucitol/sorbitol‑specific enzyme IIBC component
RA	2,825,077	T→C	C221C (TGT→TGC)	srlE →	PTS system glucitol/sorbitol‑specific enzyme IIBC component
RA	2,825,102	T→C	F230L (TTC→CTC)	srlE →	PTS system glucitol/sorbitol‑specific enzyme IIBC component
RA	2,830,181	T→C	L69L (CTA→CTG)	ygaA ←	putative 2‑component transcriptional regulator
RA	2,834,144	T→C	L435L (TTA→TTG)	hypF ←	transcriptional regulatory protein
RA	2,838,044	+G	coding (498/1458 nt)	ascF →	PTS system enzyme IIBC
RA	2,838,055	Δ1 bp	coding (509/1458 nt)	ascF →	PTS system enzyme IIBC
RA	2,840,573	T→C	intergenic (+136/+23)	ascB → / ← hycI	6‑phospho‑beta‑glucosidase/HycI
RA	2,842,033	G→T	R67R (CGC→CGA)	hycG ←	hydrogenase activity
RA	2,842,316	T→C	T154A (ACT→GCT)	hycF ←	putative iron‑sulfur protein of hydrogenase 3
RA	2,844,596	A→G	R280R (CGT→CGC)	hycD ←	membrane‑spanning protein of hydrogenase 3
RA	2,851,044	A→G	T296A (ACG→GCG)	hypD →	HypD
RA	2,862,683	T→C	V142A (GTT→GCT)	ygbM →	hypothetical protein
RA	2,862,881	T→C	L208P (CTA→CCA)	ygbM →	hypothetical protein
RA	2,864,481	T→C	V453A (GTA→GCA)	b2740 →	putative transport protein
RA	2,868,544	T→C	S262G (AGT→GGT)	ygbO ←	putative hydrogenase subunit
RA	2,872,502	T→C	D314G (GAT→GGT)	cysN ←	ATP‑sulfurylase subunit 1
RA	2,872,612	A→G	R277R (CGT→CGC)	cysN ←	ATP‑sulfurylase subunit 1
RA	2,877,392	T→C	E135G (GAG→GGG)	b2755 ←	hypothetical protein
RA	2,885,388	A→G	intergenic (‑146/+213)	ygcB ← / ← cysH	hypothetical protein/3'‑phosphoadenosine 5'‑phosphosulfate reductase
RA	2,885,561	(C)5→4	intergenic (‑319/+40)	ygcB ← / ← cysH	hypothetical protein/3'‑phosphoadenosine 5'‑phosphosulfate reductase
RA	2,893,214	C→T	G197S (GGC→AGC)	b2769 ←	putative flavoprotein
RA	2,896,819	+C	coding (622/657 nt)	ygcU ←	putative oxidoreductase subunit
RA	2,902,688	A→G	intergenic (+1292/+81)	ygcE → / ← ygcF	putative kinase/hypothetical protein
RA	2,915,759	A→G	D894G (GAT→GGT)	barA →	sensor‑regulator
RA	2,925,058	A→C	E243D (GAA→GAC)	ygdH →	hypothetical protein
RA	2,933,024	T→C	R256R (CGT→CGC)	fucP →	fucose permease
RA	2,935,409	T→C	intergenic (+28/‑51)	fucI → / → fucK	L‑fucose isomerase/L‑fuculokinase
RA	2,940,324	G→A	A89V (GCC→GTC)	gcvA ←	GcvA
RA	2,941,864	T→C	M169T (ATG→ACG)	b2810 →	hypothetical protein
RA	2,947,112	T→C	intergenic (‑80/‑152)	b2817 ← / → argA	putative amidase/N‑acetylglutamate synthase
RA	2,947,355	T→C	M31T (ATG→ACG)	argA →	N‑acetylglutamate synthase
RA	2,953,377	T→C	T217A (ACG→GCG)	recB ←	RecB
RA	2,954,264	A→T	D881E (GAT→GAA)	ptr ←	protease III
RA	2,958,357	G→A	S698S (AGC→AGT)	recC ←	RecC
RA	2,965,001	T→C	M486V (ATG→GTG)	ptsP ←	PtsP
RA	2,971,616	A→G	L90P (CTG→CCG)	ygeD ←	putative resistance protein
RA	2,973,807	A→G	V77A (GTT→GCT)	aas ←	2‑acyl‑glycerophospho‑ethanolamine acyltransferase
RA	2,975,807	A→G	L372P (CTG→CCG)	lysA ←	diaminopimelate decarboxylase
RA	2,977,219	T→C	H59H (CAT→CAC)	lysR →	LysR
RA	2,977,854	T→C	L271P (CTG→CCG)	lysR →	LysR
RA	2,979,391	T→C	T272A (ACC→GCC)	araE ←	low‑affinity L‑arabinose transport system proton symport protein
RA	2,980,019	T→C	E62E (GAA→GAG)	araE ←	low‑affinity L‑arabinose transport system proton symport protein
RA	2,991,845	T→C	N62N (AAT→AAC)	b2853 →	hypothetical protein
RA	2,997,285	(T)6→7	coding (629/756 nt)	b2865 ←	putative lipoprotein
RA	2,997,977	T→C	intergenic (‑64/‑390)	b2865 ← / → b2866	putative lipoprotein/hypothetical protein
RA	3,005,399	+C	coding (1044/1092 nt)	ygeW →	putative carbamoyl transferase
RA	3,008,642	C→T	A198A (GCC→GCT)	b2873 →	hypothetical protein
RA	3,011,893	G→A	A123V (GCG→GTG)	b2875 ←	putative synthases
RA	3,016,772	T→C	C898R (TGC→CGC)	b2878 →	putative oxidoreductase Fe‑S subunit
RA	3,018,800	T→C	F80F (TTT→TTC)	b2880 →	hypothetical protein
RA	3,019,825	G→A	P163P (CCG→CCA)	b2881 →	putative dehydrogenase
RA	3,025,603	T→C	G154G (GGT→GGC)	ygfQ →	hypothetical protein
RA	3,025,676	+C	coding (535/570 nt)	ygfQ →	hypothetical protein
RA	3,026,063	A→G	D129G (GAC→GGC)	ygfR →	putative oxidoreductase
RA	3,036,938	T→C	T276A (ACG→GCG)	xerD ←	XerD
RA	3,046,045	T→C	V339V (GTA→GTG)	gcvP ←	glycine decarboxylase
RA	3,047,558	T→C	V4V (GTA→GTG)	gcvH ←	GcvH
RA	3,064,509	T→C	M229V (ATG→GTG)	b2921 ←	putative transcriptional regulator LYSR‑type
RA	3,071,928	T→C	intergenic (‑217/+68)	epd ← / ← yggC	D‑erythrose 4‑phosphate dehydrogenase/putative kinase
RA	3,073,511	A→G	L231P (CTG→CCG)	yggF ←	hypothetical protein
RA	3,074,121	(T)5→6	coding (82/966 nt)	yggF ←	hypothetical protein
RA	3,075,220	(T)5→6	coding (256/357 nt)	yggP ←	hypothetical protein
RA	3,077,216	G→A	A45V (GCA→GTA)	cmtB ←	PTS system mannitol‑specific enzyme IIA component
RA	3,077,514	Δ1 bp	intergenic (‑165/+149)	cmtB ← / ← tktA	PTS system mannitol‑specific enzyme IIA component/transketolase 1 isozyme
RA	3,077,640	+G	intergenic (‑291/+23)	cmtB ← / ← tktA	PTS system mannitol‑specific enzyme IIA component/transketolase 1 isozyme
RA	3,077,905	A→G	S584P (TCG→CCG)	tktA ←	transketolase 1 isozyme
RA	3,078,245	C→G	G470G (GGG→GGC)	tktA ←	transketolase 1 isozyme
RA	3,079,683	A→G	intergenic (‑29/‑123)	tktA ← / → yggG	transketolase 1 isozyme/hypothetical protein
RA	3,082,961	A→G	S324P (TCC→CCC)	speA ←	biosynthetic arginine decarboxylase
RA	3,091,676	A→G	Q53R (CAG→CGG)	yqgF →	hypothetical protein
RA	3,099,661	(A)5→6	intergenic (‑19/+164)	yggN ← / ← b2959	hypothetical protein/hypothetical protein
RA	3,100,603	A→G	F90L (TTC→CTC)	yggH ←	hypothetical protein
RA	3,106,891	A→G	Y95H (TAT→CAT)	b2965 ←	ornithine decarboxylase isozyme
RA	3,107,469	+C	intergenic (‑296/‑101)	b2965 ← / → yqgA	ornithine decarboxylase isozyme/putative transport protein
RA	3,108,438	C→A	noncoding (56/76 nt)	pheV →	tRNA‑Phe
RA	3,112,040	T→C	A110A (GCA→GCG)	b2972 ←	putative peptidase
RA	3,115,116	+C	coding (2013/2028 nt)	b2974 ←	putative endoglucanase
RA	3,122,445	G→A	A698V (GCG→GTG)	glcF ←	glycolate oxidase iron‑sulfur subunit
RA	3,123,585	+G	coding (953/2286 nt)	glcF ←	glycolate oxidase iron‑sulfur subunit
RA	3,125,293	T→C	G248G (GGA→GGG)	glcD ←	glycolate oxidase subunit D
RA	3,125,359	T→C	K226K (AAA→AAG)	glcD ←	glycolate oxidase subunit D
RA	3,126,892	T→C	H202H (CAT→CAC)	glcC →	GlcC
RA	3,127,469	G→A	G254G (GGC→GGT)	b2981 ←	hypothetical protein
RA	3,129,641	C→T	V261V (GTG→GTA)	b2983 ←	hypothetical protein
RA	3,130,334	A→G	V30V (GTT→GTC)	b2983 ←	hypothetical protein
RA	3,141,722	A→G	L153P (CTG→CCG)	hybB ←	putative cytochrome Ni/Fe component of hydrogenase‑2
RA	3,145,571	A→G	intergenic (‑819/‑341)	b2998 ← / → b3001	hypothetical protein/putative reductase
RA	3,152,247	+C	intergenic (+10/+29)	yghB → / ← yqhC	hypothetical protein/putative ARAC‑type regulatory protein
RA	3,154,617	T→C	intergenic (+85/‑20)	yqhD → / → b3012	putative oxidoreductase/hypothetical protein
MC JC	3,156,257	(CCA)2→1	coding (594‑596/930 nt)	yqhG →	hypothetical protein
RA	3,158,202	+C	coding (961/975 nt)	ygiRQ ←	Fe‑S oxidoreductase
RA	3,160,251	A→G	T145T (ACT→ACC)	sufI ←	suppressor of ftsI
RA	3,162,333	A→G	Y553H (TAT→CAT)	parC ←	DNA topoisomerase IV subunit A
RA	3,164,065	T→C	intergenic (‑76/+62)	parC ← / ← b3020	DNA topoisomerase IV subunit A/putative transport periplasmic protein
RA	3,166,935	2 bp→CG	coding (312‑313/483 nt)	b3023 ←	hypothetical protein
RA	3,168,017	T→C	D58D (GAT→GAC)	qseB →	quorum sensing regulator B
RA	3,175,525	(C)6→7	coding (402/630 nt)	yqiE ←	hypothetical protein
RA	3,183,028	T→C	V70A (GTC→GCC)	b3042 →	hypothetical protein
RA	3,184,181	(T)5→6	intergenic (+200/‑22)	ygiL → / → yi215	putative fimbrial‑like protein/IS2 hypothetical protein
RA	3,185,776	T→C	F121L (TTC→CTC)	yqiG →	putative membrane protein
RA	3,185,807	T→C	F131S (TTT→TCT)	yqiG →	putative membrane protein
RA	3,186,266	T→C	V284A (GTC→GCC)	yqiG →	putative membrane protein
RA	3,188,237	T→C	V114A (GTG→GCG)	b3047 →	putative membrane protein
RA	3,191,015	G→A	G46S (GGT→AGT)	b3051 →	putative membrane protein
RA	3,202,618	T→C	I95T (ATC→ACC)	ygiH →	hypothetical protein
RA	3,211,779	T→C	R364R (CGT→CGC)	rpoD →	RNA polymerase sigma(70)
RA	3,212,918	A→G	V66A (GTC→GCC)	ygjF ←	hypothetical protein
RA	3,215,450	T→C	Q423R (CAG→CGG)	aer ←	Aer
RA	3,221,097	2 bp→GC	coding (824‑825/3093 nt)	b3076 →	evolved beta‑D‑galactosidase alpha subunit
RA	3,221,280	T→C	L336P (CTG→CCG)	b3076 →	evolved beta‑D‑galactosidase alpha subunit
RA	3,222,944	4 bp→AGCA	coding (2671‑2674/3093 nt)	b3076 →	evolved beta‑D‑galactosidase alpha subunit
RA	3,223,631	A→G	E90G (GAA→GGA)	ebgC →	evolved beta‑D‑galactosidase beta subunit
RA	3,224,879	Δ1 bp	coding (1005/1434 nt)	ygjI →	putative oxidoreductase
RA	3,224,926	+C	coding (1052/1434 nt)	ygjI →	putative oxidoreductase
RA	3,225,456	T→C	T5T (ACT→ACC)	ygjJ →	hypothetical protein
RA	3,228,614	G→A	A696T (GCT→ACT)	ygjK →	putative isomerase
RA	3,233,455	T→C	D21G (GAC→GGC)	b3084 ←	hypothetical protein
RA	3,236,177	Δ1 bp	intergenic (+239/‑45)	ygjR → / → ygjT	hypothetical protein/putative transport protein
RA	3,236,735	+C	coding (514/966 nt)	ygjT →	putative transport protein
RA	3,236,758	Δ1 bp	coding (537/966 nt)	ygjT →	putative transport protein
RA	3,237,242	+C	intergenic (+55/‑342)	ygjT → / → ygjU	putative transport protein/putative transport protein
RA	3,237,247	+C	intergenic (+60/‑337)	ygjT → / → ygjU	putative transport protein/putative transport protein
RA	3,243,762	T→C	V340A (GTT→GCT)	exuT →	ExuT
RA	3,251,140	G→C	L239V (CTT→GTT)	yhaJ ←	putative transcriptional regulator LYSR‑type
RA	3,251,675	A→G	R60R (CGT→CGC)	yhaJ ←	putative transcriptional regulator LYSR‑type
RA	3,253,742	Δ1 bp	coding (551/552 nt)	yhaNM ←	hypothetical protein
RA	3,253,781	T→C	E171G (GAG→GGG)	yhaNM ←	hypothetical protein
RA	3,255,594	Δ1 bp	coding (4/1278 nt)	yhaO ←	putative transport system permease protein
RA	3,255,616	Δ1 bp	intergenic (‑19/+312)	yhaO ← / ← yhaP	putative transport system permease protein/putative L‑serine dehydratase
RA	3,256,893	+C	coding (405/423 nt)	yhaQ ←	putative L‑serine dehydratase
RA	3,257,838	+G	coding (2222/2241 nt)	tdcE ←	putative formate acetyltransferase 3
RA	3,263,134	A→G	V179A (GTG→GCG)	tdcB ←	threonine dehydratase
RA	3,268,771	G→A	A214V (GCC→GTC)	b3124 ←	hypothetical protein
RA	3,272,016	T→C	E178G (GAG→GGG)	yhaU ←	putative transport protein
RA	3,277,670	T→C	R372R (CGT→CGC)	agaZ →	putative tagatose‑6‑phosphate kinase 2
RA	3,279,197	A→C	R145S (AGA→AGC)	agaA →	putative N‑acetylgalactosamine‑6‑phosphate deacetylase
RA	3,284,393	A→G	E161E (GAA→GAG)	agaI →	putative galactosamine‑6‑phosphate isomerase
RA	3,286,119	T→C	V130A (GTA→GCA)	yraI →	putative chaperone
RA	3,286,677	A→G	T75A (ACT→GCT)	yraJ →	putative outer membrane protein
RA	3,289,431	T→C	G150G (GGT→GGC)	yraK →	putative fimbrial protein
RA	3,289,828	G→A	V283I (GTA→ATA)	yraK →	putative fimbrial protein
RA	3,295,175	T→C	Q202R (CAG→CGG)	yraQ ←	hypothetical protein
RA	3,300,625	G→A	V172I (GTC→ATC)	yhbV →	hypothetical protein
RA	3,305,090	C→T	D155N (GAC→AAC)	deaD ←	inducible ATP‑independent RNA helicase
RA	3,305,459	C→T	A32T (GCT→ACT)	deaD ←	inducible ATP‑independent RNA helicase
RA	3,309,164	A→G	R54R (CGT→CGC)	rpsO ←	30S ribosomal subunit protein S15
RA	3,316,316	T→C	R13R (CGT→CGC)	argG →	argininosuccinate synthetase
RA	3,316,615	T→C	M113T (ATG→ACG)	argG →	argininosuccinate synthetase
RA	3,327,704	(C)5→6	coding (1101/1434 nt)	dacB →	D‑alanyl‑D‑alanine carboxypeptidase fraction B
RA	3,329,055	C→T	R114H (CGT→CAT)	yhbZ ←	putative GTP‑binding factor
RA	3,331,223	(A)8→9	intergenic (‑131/‑128)	rplU ← / → ispB	50S ribosomal subunit protein L21/octaprenyl diphosphate synthase
RA	3,333,953	A→G	G61G (GGT→GGC)	murA ←	UDP‑N‑glucosamine 1‑carboxyvinyltransferase
RA	3,334,354	T→C	I36V (ATT→GTT)	yrbA ←	hypothetical protein
RA	3,337,699	T→C	Q3R (CAG→CGG)	yrbF ←	putative ATP‑binding component of a transport system
RA	3,339,304	+C	coding (398/987 nt)	yrbH →	putative isomerase
RA	3,340,190	A→G	T93A (ACT→GCT)	yrbI →	hypothetical protein
RA	3,345,920	C→T	intergenic (+41/‑173)	ptsO → / → yrbL	phosphocarrier protein HPr‑like NPr/hypothetical protein
RA	3,351,337	T→C	T117A (ACC→GCC)	yhcC ←	hypothetical protein
RA	3,352,254	2 bp→GC	intergenic (‑569/‑12)	yhcC ← / → gltB	hypothetical protein/glutamate synthase large subunit
RA	3,352,410	C→T	I48I (ATC→ATT)	gltB →	glutamate synthase large subunit
RA	3,353,950	A→G	T562A (ACC→GCC)	gltB →	glutamate synthase large subunit
RA	3,356,616	T→C	A1450A (GCT→GCC)	gltB →	glutamate synthase large subunit
RA	3,358,838	G→A	A10T (GCT→ACT)	gltF →	GltF
RA	3,359,299	T→C	G163G (GGT→GGC)	gltF →	GltF
RA	3,360,454	(A)8→7	coding (13/2382 nt)	yhcD →	putative outer membrane protein
RA	3,362,693	T→C	L751P (CTC→CCC)	yhcD →	putative outer membrane protein
RA	3,365,636	A→G	R59G (AGG→GGG)	yhcG →	hypothetical protein
RA	3,366,054	A→G	H198R (CAC→CGC)	yhcG →	hypothetical protein
RA	3,367,240	T→C	Y249C (TAT→TGT)	yhcI ←	putative NAGC‑like transcriptional regulator
RA	3,370,778	A→G	V145A (GTA→GCA)	nanA ←	N‑acetylneuraminate lyase
RA	3,374,263	T→C	Q50R (CAA→CGA)	sspB ←	stringent starvation protein B
RA	3,374,589	A→G	L156P (CTG→CCG)	sspA ←	stringent starvation protein A
RA	3,383,369	C→T	T83M (ACG→ATG)	yhcN →	hypothetical protein
RA	3,389,812	Δ1 bp	intergenic (‑149/+4151)	tldD ← / ← cafA	TldD/CafA
RA	3,389,896	C→T	intergenic (‑233/+4067)	tldD ← / ← cafA	TldD/CafA
RA	3,393,106	Δ1 bp	intergenic (‑3443/+857)	tldD ← / ← cafA	TldD/CafA
RA	3,393,906	T→C	intergenic (‑4243/+57)	tldD ← / ← cafA	TldD/CafA
RA	3,395,250	C→T	G67G (GGG→GGA)	cafA ←	CafA
RA	3,402,824	G→A	intergenic (‑570/‑249)	b3254 ← / → accB	hypothetical protein/acetyl‑CoA carboxylase BCCP subunit
RA	3,403,945	T→C	V131A (GTA→GCA)	accC →	acetyl CoA carboxylase
RA	3,405,469	T→C	W76R (TGG→CGG)	b3258 →	sodium/pantothenate symporter
RA	3,407,232	G→A	A176T (GCG→ACG)	prmA →	PrmA
RA	3,409,813	T→C	V175A (GTA→GCA)	b3262 →	putative methyltransferase
RA	3,410,192	T→C	intergenic (+18/‑66)	b3262 → / → yhdU	putative methyltransferase/hypothetical protein
RA	3,411,069	T→C	T12A (ACC→GCC)	envR ←	putative transcriptional regulator
RA	3,418,628	A→G	A286A (GCA→GCG)	b3269 →	putative transport system permease protein
RA	3,418,840	+G	coding (1070/1089 nt)	b3269 →	putative transport system permease protein
RA	3,421,120	Δ1 bp	noncoding (60/121 nt)	rrfF ←	5S ribosomal RNA
RA	3,427,075	T→C	V68A (GTC→GCC)	b3279 →	putative transferase
RA	3,427,261	T→C	V130A (GTC→GCC)	b3279 →	putative transferase
RA	3,429,527	Δ1 bp	coding (40/510 nt)	yrdD ←	putative DNA topoisomerase
RA	3,430,453	+C	coding (745/747 nt)	smf ←	putative Rossmann‑fold nucleotide‑binding protein
RA	3,433,176	T→C	R111R (CGT→CGC)	sun →	hypothetical protein
RA	3,434,055	A→G	P404P (CCA→CCG)	sun →	hypothetical protein
RA	3,450,109	G→A	P152L (CCG→CTG)	rplC ←	50S ribosomal subunit protein L3
RA	3,454,538	T→C	N175N (AAT→AAC)	b3325 →	YheF
RA	3,456,098	A→G	Q41Q (CAA→CAG)	yheG →	YheG
RA	3,463,677	C→T	G166G (GGC→GGT)	hofD →	leader peptidase
RA	3,472,167	A→C	V8G (GTA→GGA)	rpsL ←	30S ribosomal subunit protein S12
RA	3,475,807	T→C	T110A (ACT→GCT)	slyD ←	FKBP‑type peptidyl‑prolyl cis‑trans isomerase
RA	3,483,550	A→G	intergenic (‑95/‑207)	yhfA ← / → crp	hypothetical protein/cyclic AMP receptor protein
RA	3,483,814	C→T	H20Y (CAC→TAC)	crp →	cyclic AMP receptor protein
RA	3,484,054	T→C	Y100H (TAC→CAC)	crp →	cyclic AMP receptor protein
RA	3,490,327	T→C	P41P (CCT→CCC)	yhfC →	putative transport
RA	3,494,690	A→G	A17A (GCA→GCG)	nirC →	Nitrite transporter
RA	3,496,430	T→C	I322I (ATT→ATC)	cysG →	uroporphyrinogen III methylase
RA	3,500,309	Δ1 bp	coding (333/363 nt)	b3372 →	hypothetical protein
RA	3,507,831	T→C	T262A (ACT→GCT)	yhfX ←	hypothetical protein
RA	3,509,089	T→C	N5S (AAC→AGC)  E225E (GAA→GAG)	yhfY ← yhfZ ←	hypothetical protein hypothetical protein
RA	3,509,958	Δ1 bp	intergenic (‑195/+314)	yhfZ ← / ← trpS	hypothetical protein/tryptophan tRNA synthetase
RA	3,510,121	+G	intergenic (‑358/+151)	yhfZ ← / ← trpS	hypothetical protein/tryptophan tRNA synthetase
RA	3,525,330	T→C	T408T (ACT→ACC)	yrfF →	putative dehydrogenase
RA	3,533,160	A→G	L116P (CTG→CCG)	envZ ←	protein histidine kinase
RA	3,533,972	G→A	A84V (GCG→GTG)	ompR ←	OmpR
RA	3,537,405	+GC	intergenic (+61/‑394)	b3407 → / → feoA	hypothetical protein/ferrous iron transport protein A
RA	3,539,774	G→A	A578T (GCC→ACC)	feoB →	ferrous iron transport protein B
RA	3,540,000	T→C	V653A (GTG→GCG)	feoB →	ferrous iron transport protein B
RA	3,544,357	+G	coding (163/1314 nt)	gntT →	gluconate permease
RA	3,544,360	+G	coding (166/1314 nt)	gntT →	gluconate permease
RA	3,544,363	+C	coding (169/1314 nt)	gntT →	gluconate permease
RA	3,544,971	T→C	G259G (GGT→GGC)	gntT →	gluconate permease
RA	3,548,005	C→T	G701D (GGT→GAT)	malP ←	maltodextrin phosphorylase
RA	3,554,088	+C	coding (2/624 nt)	yhgKJ ←	RNA phosphage cyclase
RA	3,554,113	Δ1 bp	coding (372/396 nt)	yhgKJ ←	RNA phosphage cyclase
RA	3,554,118	+C	coding (367/396 nt)	yhgKJ ←	RNA phosphage cyclase
RA	3,558,932	2 bp→GC	coding (153‑154/831 nt)	glpG ←	GlpG
RA	3,566,875	A→G	R29R (CGT→CGC)	glgC ←	glucose‑1‑phosphate adenylyltransferase
RA	3,568,434	A→G	R173R (CGT→CGC)	glgX ←	GlgX
RA	3,573,700	+C	intergenic (+403/+997)	yhgN → / ← gntK	hypothetical protein/gluconokinase 2
RA	3,575,446	+G	coding (912/942 nt)	gntR ←	GntR
RA	3,579,597	A→G	H35R (CAT→CGT)	yhhZ →	hypothetical protein
RA	3,582,668	G→A	L93L (TTG→TTA)	yrhB →	hypothetical protein
RA	3,586,561	T→C	N97S (AAC→AGC)	ugpC ←	ATP‑binding component of sn‑glycerol 3‑phosphate transport system
RA	3,588,897	A→G	Y354H (TAT→CAT)	ugpB ←	UgpB
RA	3,590,502	A→G	T189T (ACT→ACC)	b3454 ←	ATP‑binding component of leucine transport
RA	3,595,797	A→G	G61G (GGA→GGG)	yhhK →	hypothetical protein
RA	3,596,295	A→G	V332A (GTG→GCG)	b3460 ←	LivJ
RA	3,597,072	T→C	D73G (GAC→GGC)	b3460 ←	LivJ
RA	3,597,539	T→C	intergenic (‑250/+21)	b3460 ← / ← rpoH	LivJ/sigma(32) factor
RA	3,602,962	A→G	Y94H (TAC→CAC)	yhhM ←	putative receptor
RA	3,604,952	T→C	S291P (TCC→CCC)	zntA →	zinc‑transporting ATPase
RA	3,614,182	T→C	F124L (TTC→CTC)	nikC →	NikC
RA	3,614,539	T→C	F243L (TTC→CTC)	nikC →	NikC
RA	3,620,852	A→G	T1344A (ACT→GCT)	rhsB →	RhsB
RA	3,621,415	T→C	intergenic (+2/‑594)	yhhH → / → yhhI	hypothetical protein/putative receptor
RA	3,624,135	A→G	N100N (AAT→AAC)	b3485 ←	putative transporter
RA	3,624,700	T→C	I807V (ATT→GTT)	yhiH ←	putative ATP‑binding component of a transport system, fragment 1
RA	3,627,142	+G	intergenic (‑24/+23)	yhiH ← / ← yhiI	putative ATP‑binding component of a transport system, fragment 1/putative membrane protein
RA	3,628,759	G→A	R488C (CGT→TGT)	yhiJ ←	hypothetical protein
RA	3,634,228	A→G	R271R (CGT→CGC)	yhiN ←	hypothetical protein
RA	3,637,944	T→C	H68H (CAT→CAC)	uspA →	universal stress protein
RA	3,638,755	A→G	A88A (GCA→GCG)	yhiP →	putative transport protein
RA	3,639,342	T→C	L284P (CTC→CCC)	yhiP →	putative transport protein
RA	3,648,042	T→C	L59P (CTG→CCG)	arsC →	arsenate reductase
RA	3,649,511	G→A	E197E (GAG→GAA)	yhiS →	hypothetical protein
RA	3,660,679	T→C	L879P (CTG→CCG)	yhiV →	putative transport system permease protein
RA	3,661,127	A→G	E1028E (GAA→GAG)	yhiV →	putative transport system permease protein
RA	3,661,531	T→C	T240A (ACC→GCC)	yhiW ←	putative ARAC‑type regulatory protein
RA	3,665,586	T→C	A411A (GCA→GCG)	yhjA ←	putative cytochrome C peroxidase
RA	3,666,629	T→C	T64A (ACG→GCG)	yhjA ←	putative cytochrome C peroxidase
RA	3,676,601	T→C	T74A (ACC→GCC)	yhjH ←	hypothetical protein
RA	3,678,204	G→A	P456L (CCG→CTG)	yhjJ ←	hypothetical protein
RA	3,679,306	T→C	S89G (AGC→GGC)	yhjJ ←	hypothetical protein
RA	3,683,091	A→G	V42A (GTC→GCC)	yhjK ←	hypothetical protein
RA	3,686,775	+T	intergenic (‑23/+9)	b3530 ← / ← yhjM	putative oxidoreductase subunit/putative endoglucanase
RA	3,697,555	G→A	intergenic (+33/‑637)	yhjU → / → yhjV	hypothetical protein/putative transporter protein
RA	3,698,466	A→G	N92S (AAC→AGC)	yhjV →	putative transporter protein
RA	3,703,602	2 bp→GC	intergenic (‑183/+124)	dppB ← / ← dppA	dipeptide transport system permease protein 1/dipeptide transport protein
RA	3,704,229	(T)5→4	coding (1106/1608 nt)	dppA ←	dipeptide transport protein
RA	3,704,865	T→C	K157R (AAG→AGG)	dppA ←	dipeptide transport protein
RA	3,705,464	T→C	intergenic (‑130/+781)	dppA ← / ← proK	dipeptide transport protein/tRNA‑Pro
RA	3,710,555	(T)8→7	coding (9/699 nt)	b3548 ←	putative lipase
RA	3,714,436	2 bp→GC	coding (261‑262/660 nt)	yiaD →	putative outer membrane protein
RA	3,724,581	T→C	Q137R (CAG→CGG)	yiaA ←	hypothetical protein
RA	3,725,180	G→A	I70I (ATC→ATT)	yiaB ←	hypothetical protein
RA	3,726,444	T→C	D186G (GAC→GGC)	xylB ←	xylulokinase
RA	3,730,104	T→C	L92P (CTG→CCG)	xylG →	putative ATP‑binding protein of xylose transport system
RA	3,731,386	T→C	V13A (GTA→GCA)	xylH →	XylH
RA	3,734,264	2 bp→GC	coding (542‑543/825 nt)	bax ←	putative ATP‑binding protein
RA	3,735,415	G→A	R97H (CGC→CAC)	malS →	alpha‑amylase
RA	3,737,956	2 bp→CG	coding (623‑624/1254 nt)	avtA →	alanine‑alpha‑ketoisovalerate transaminase
RA	3,739,740	A→G	M141T (ATG→ACG)	yiaJ ←	putative regulator
RA	3,740,514	T→C	R51R (CGT→CGC)	yiaK →	putative dehydrogenase
RA	3,743,603	Δ1 bp	coding (1171/1275 nt)	yiaN →	putative membrane protein
RA	3,744,796	G→A	G28D (GGC→GAC)	lyxK →	L‑xylulose kinase
RA	3,744,958	G→A	G82E (GGA→GAA)	lyxK →	L‑xylulose kinase
RA	3,745,316	C→T	I201I (ATC→ATT)	lyxK →	L‑xylulose kinase
RA	3,749,710	T→C	L30P (CTT→CCT)	yiaU →	putative transcriptional regulator LYSR‑type
RA	3,754,310	C→A	R382M (AGG→ATG)	yiaY ←	putative oxidoreductase
JC	3,754,317	+GCG	coding (1138/1149 nt)	yiaY ←	putative oxidoreductase
RA	3,754,821	T→C	T212A (ACT→GCT)	yiaY ←	putative oxidoreductase
RA	3,755,517	T→C	intergenic (‑63/+127)	yiaY ← / ← selB	putative oxidoreductase/selenocysteinyl‑tRNA‑specific translation factor
RA	3,765,203	A→T	Q119L (CAG→CTG)	yibJ →	hypothetical protein
RA	3,765,234	G→A	G129G (GGG→GGA)	yibJ →	hypothetical protein
RA	3,765,916	A→G	Y38C (TAT→TGT)	yibG →	hypothetical protein
RA	3,772,157	T→C	V36A (GTA→GCA)	mtlD →	mannitol‑1‑phosphate dehydrogenase
RA	3,774,290	A→G	intergenic (‑283/‑2)	b4550 ← / → yibL	hypothetical protein/hypothetical protein
RA	3,775,779	A→G	I252V (ATT→GTT)	lldP →	L‑lactate permease
RA	3,776,340	G→A	G439S (GGT→AGT)	lldP →	L‑lactate permease
RA	3,778,658	(C)5→4	intergenic (+14/‑184)	lldD → / → yibK	L‑lactate dehydrogenase/hypothetical protein
RA	3,785,382	G→A	T306T (ACG→ACA)	b3613 →	putative membrane protein
RA	3,786,097	A→G	M124V (ATG→GTG)	b3614 →	hypothetical protein
RA	3,786,415	A→G	T230A (ACG→GCG)	b3614 →	hypothetical protein
RA	3,787,263	C→G	G149A (GGC→GCC)	yibD ←	putative regulator
RA	3,791,583	T→C	intergenic (‑258/‑31)	htrL ← / → rfaD	HtrL/ADP‑L‑glycero‑D‑mannoheptose‑6‑epimerase
RA	3,793,037	A→G	Q161R (CAG→CGG)	rfaF →	ADP‑heptose‑‑lps heptosyltransferase II
RA	3,795,233	T→C	L220P (CTG→CCG)	rfaL →	O‑antigen ligase
RA	3,795,982	A→G	S320P (TCC→CCC)	rfaK ←	putative hexose transferase
RA	3,800,657	T→C	E10G (GAG→GGG)	rfaI ←	UDP‑D‑galactose:(glucosyl)lipopolysaccharide‑ alpha‑1,3‑D‑galactosyltransferase
RA	3,802,880	A→G	M233T (ATG→ACG)	rfaP ←	RfaP
RA	3,804,224	A→G	T157T (ACT→ACC)	rfaG ←	glucosyltransferase I
RA	3,804,546	T→C	E50G (GAG→GGG)	rfaG ←	glucosyltransferase I
RA	3,806,424	G→A	T86T (ACG→ACA)	kdtA →	3‑deoxy‑D‑manno‑octulosonic‑acid transferase
RA	3,806,842	C→T	R226C (CGC→TGC)	kdtA →	3‑deoxy‑D‑manno‑octulosonic‑acid transferase
RA	3,812,423	T→C	R101R (CGT→CGC)	b3641 →	putative transcriptional regulator
RA	3,814,809	A→G	K169K (AAA→AAG)	yicC →	putative alpha helix protein
RA	3,816,555	(G)5→6	coding (55/618 nt)	b3646 →	hypothetical protein
RA	3,817,156	T→C	S550G (AGT→GGT)	yicF ←	hypothetical protein
RA	3,819,792	A→G	V20V (GTA→GTG)	rpoZ →	RNA polymerase omega subunit
RA	3,822,652	T→C	Y171H (TAC→CAC)	spoU →	putative RNA methylase
RA	3,822,805	T→C	W222R (TGG→CGG)	spoU →	putative RNA methylase
RA	3,827,834	C→T	G421G (GGC→GGT)	yicE →	putative transport protein
RA	3,829,419	C→T	R446C (CGC→TGC)	yicH →	hypothetical protein
RA	3,831,541	T→C	V208V (GTA→GTG)	yicI ←	hypothetical protein
RA	3,834,776	T→C	V66A (GTC→GCC)	yicK →	two‑module transport protein
RA	3,837,057	G→A	L188L (CTC→CTT)	nlpA ←	lipoprotein‑28
RA	3,838,233	T→C	T433T (ACA→ACG)	yicM ←	putative transport protein
RA	3,838,693	A→G	I280T (ATC→ACC)	yicM ←	putative transport protein
RA	3,845,193	G→A	T354T (ACC→ACT)	uhpC ←	UhpC
RA	3,847,265	A→G	W167R (TGG→CGG)	b3668 ←	sensor histidine protein kinase
RA	3,847,491	T→C	L91L (TTA→TTG)	b3668 ←	sensor histidine protein kinase
RA	3,849,668	G→A	G248G (GGC→GGT)	ilvB ←	acetolactate synthase I large subunit
RA	3,850,058	G→A	G118G (GGC→GGT)	ilvB ←	acetolactate synthase I large subunit
RA	3,850,750	A→G	intergenic (‑135/‑793)	ivbL ← / → emrD	ilvB operon leader peptide/2‑module integral membrane pump
RA	3,851,411	A→G	intergenic (‑796/‑132)	ivbL ← / → emrD	ilvB operon leader peptide/2‑module integral membrane pump
RA	3,851,510	T→C	intergenic (‑895/‑33)	ivbL ← / → emrD	ilvB operon leader peptide/2‑module integral membrane pump
RA	3,857,508	T→C	E79G (GAA→GGA)	yidK ←	putative cotransporter
RA	3,858,839	C→T	intergenic (+36/+137)	yidL → / ← glvG	putative ARAC‑type regulatory protein/putative 6‑phospho‑beta‑glucosidase
RA	3,860,862	T→C	A123A (GCA→GCG)	b4553 ←	hypothetical protein
RA	3,862,488	G→A	A471A (GCC→GCT)	yidE ←	putative transport protein
RA	3,863,429	T→C	M158V (ATG→GTG)	yidE ←	putative transport protein
RA	3,868,477	A→G	L294P (CTG→CCG)	b3691 ←	D‑galactonate transport
RA	3,869,012	T→C	I116V (ATT→GTT)	b3691 ←	D‑galactonate transport
RA	3,870,631	Δ1 bp	coding (610/1764 nt)	dgoA ←	2‑oxo‑3‑deoxygalactonate 6‑phosphate aldolase
RA	3,870,765	+G	coding (476/1764 nt)	dgoA ←	2‑oxo‑3‑deoxygalactonate 6‑phosphate aldolase
RA	3,870,876	Δ1 bp	coding (365/1764 nt)	dgoA ←	2‑oxo‑3‑deoxygalactonate 6‑phosphate aldolase
RA	3,872,450	+G	coding (338/387 nt)	yidW ←	regulator protein for dgo operon
RA	3,873,493	T→C	C124C (TGT→TGC)	yidX →	putative replicase
RA	3,873,627	Δ1 bp	coding (506/672 nt)	yidX →	putative replicase
RA	3,874,579	A→G	M1T (ATG→ACG) †	yidA ←	hypothetical protein
RA	3,875,213	T→C	intergenic (‑120/+120)	b3698 ← / ← gyrB	hypothetical protein/DNA gyrase subunit B
RA	3,876,595	G→C	P385A (CCG→GCG)	gyrB ←	DNA gyrase subunit B
RA	3,881,483	Δ1 bp	intergenic (‑126/‑482)	dnaA ← / → rpmH	DnaA/50S ribosomal subunit protein L34
RA	3,883,067	T→C	D121D (GAT→GAC)	yidC →	60 KD inner‑membrane protein
RA	3,886,722	G→A	G122S (GGC→AGC)	b3708 →	tryptophanase
RA	3,888,869	G→A	A335A (GCG→GCA)	tnaB →	low affinity tryptophan permease
RA	3,892,505	T→C	G75G (GGT→GGC)	yieF →	hypothetical protein
RA	3,893,993	A→G	A82A (GCT→GCC)	yieG ←	putative membrane/transport protein
RA	3,894,054	G→T	A62D (GCC→GAC)	yieG ←	putative membrane/transport protein
RA	3,896,324	+G	coding (698/711 nt)	b3718 ←	putative isomerase
RA	3,897,445	T→C	N265S (AAC→AGC)	yieL ←	putative xylanase
RA	3,899,975	G→A	A452V (GCA→GTA)	bglB ←	phospho‑beta‑glucosidase B
RA	3,901,321	T→G	A3A (GCA→GCC)	bglB ←	phospho‑beta‑glucosidase B
RA	3,902,432	G→A	P265L (CCG→CTG)	bglF ←	PTS system beta‑glucosides‑specific enzyme IIABC component
RA	3,902,722	G→A	G168G (GGC→GGT)	bglF ←	PTS system beta‑glucosides‑specific enzyme IIABC component
RA	3,905,748	A→G	S83P (TCT→CCT)	pstB ←	ATP‑binding component of high‑affinity phosphate‑specific transport system
RA	3,906,635	C→T	V145M (GTG→ATG)	pstA ←	high‑affinity phosphate‑specific transport system
RA	3,911,767	A→G	R354R (CGT→CGC)	glmU ←	N‑acetyl glucosamine‑1‑phosphate uridyltransferase
RA	3,912,542	T→C	D96G (GAT→GGT)	glmU ←	N‑acetyl glucosamine‑1‑phosphate uridyltransferase
RA	3,913,076	(G)6→7	intergenic (‑248/+105)	glmU ← / ← atpC	N‑acetyl glucosamine‑1‑phosphate uridyltransferase/membrane‑bound ATP synthase, F1 sector, epsilon‑subunit
RA	3,915,043	G→C	A284G (GCC→GGC)	atpG ←	membrane‑bound ATP synthase, F1 sector, gamma‑subunit
RA	3,915,661	T→C	Y78C (TAC→TGC)	atpG ←	membrane‑bound ATP synthase, F1 sector, gamma‑subunit
RA	3,916,382	A→G	V368V (GTT→GTC)	atpA ←	membrane‑bound ATP synthase, F1 sector, alpha‑subunit
RA	3,917,055	T→C	Q144R (CAG→CGG)	atpA ←	membrane‑bound ATP synthase, F1 sector, alpha‑subunit
RA	3,918,274	T→C	K81K (AAA→AAG)	atpF ←	membrane‑bound ATP synthase, F0 sector, subunit b
RA	3,923,857	T→C	Q76R (CAG→CGG)	mioC ←	MioC
RA	3,925,742	T→C	A320A (GCT→GCC)	asnA →	asparagine synthetase A
RA	3,926,753	T→C	Q104R (CAG→CGG)	yieM ←	hypothetical protein
RA	3,927,062	+G	coding (2/1284 nt) coding (169/183 nt)	yieM ← b4564 ←	hypothetical protein hypothetical protein
RA	3,929,460	T→C	M173T (ATG→ACG)	kup →	low affinity potassium transport system
RA	3,930,457	Δ1 bp	coding (1515/1560 nt)	kup →	low affinity potassium transport system
RA	3,930,568	+G	intergenic (+66/‑373)	kup → / → rbsD	low affinity potassium transport system/RbsD
RA	3,930,677	+G	intergenic (+175/‑264)	kup → / → rbsD	low affinity potassium transport system/RbsD
RA	3,931,938	T→C	S179P (TCC→CCC)	rbsA →	ATP‑binding component of D‑ribose high‑affinity transport system
RA	3,934,276	C→T	H125Y (CAC→TAC)	rbsB →	D‑ribose periplasmic binding protein
RA	3,934,461	A→G	P186P (CCA→CCG)	rbsB →	D‑ribose periplasmic binding protein
RA	3,934,526	T→C	V208A (GTT→GCT)	rbsB →	D‑ribose periplasmic binding protein
RA	3,934,746	A→G	K281K (AAA→AAG)	rbsB →	D‑ribose periplasmic binding protein
RA	3,935,564	(A)5→4	coding (645/930 nt)	rbsK →	ribokinase
RA	3,937,523	A→G	L239P (CTG→CCG)	yieO ←	putative transport protein
RA	3,938,374	C→T	D145N (GAC→AAC)	yiePs ←	hypothetical protein
JC	3,938,587	+TGC	coding (220/546 nt)	yiePs ←	hypothetical protein
RA	3,938,723	C→T	R28R (CGG→CGA)	yiePs ←	hypothetical protein
RA	3,941,531	T→C	noncoding (206/2906 nt)	rrlC →	23S ribosomal RNA
RA	3,941,734	Δ1 bp	noncoding (409/2906 nt)	rrlC →	23S ribosomal RNA
RA	3,944,244	C→A	intergenic (+13/‑80)	rrlC → / → rrfC	23S ribosomal RNA/5S ribosomal RNA
RA	3,944,676	2 bp→GC	intergenic (+20/+75)	trpT → / ← yifDA	tRNA‑Trp/transcription regulator
RA	3,945,351	+C	coding (1/600 nt) coding (240/240 nt)	yifDA ← yifDA ←	transcription regulator transcription regulator
RA	3,945,896	T→C	V63A (GTA→GCA)	yifE →	hypothetical protein
RA	3,948,221	A→G	A13A (GCA→GCG)	ilvG →	acetolactate synthase II large subunit
RA	3,949,331	A→G	Q384R (CAG→CGG)	ilvG →	acetolactate synthase II large subunit
RA	3,950,224	A→G	I40V (ATC→GTC)	ilvE →	branched‑chain amino‑acid aminotransferase
RA	3,950,400	T→C	R98R (CGT→CGC)	ilvE →	branched‑chain amino‑acid aminotransferase
RA	3,950,557	2 bp→GC	coding (451‑452/930 nt)	ilvE →	branched‑chain amino‑acid aminotransferase
RA	3,951,166	+C	coding (35/1818 nt)	ilvD →	dihydroxyacid dehydratase
RA	3,951,168	+G	coding (37/1818 nt)	ilvD →	dihydroxyacid dehydratase
RA	3,953,910	A→G	N320S (AAC→AGC)	ilvA →	threonine deaminase
RA	3,957,092	+CC	intergenic (+26/+58)	ilvC → / ← ppiC	ketol‑acid reductoisomerase/peptidyl‑prolyl cis‑trans isomerase C
RA	3,957,124	+G	intergenic (+58/+26)	ilvC → / ← ppiC	ketol‑acid reductoisomerase/peptidyl‑prolyl cis‑trans isomerase C
RA	3,957,548	1 bp→GG	intergenic (‑117/‑744)	ppiC ← / → rep	peptidyl‑prolyl cis‑trans isomerase C/rep helicase
RA	3,957,551	+T	intergenic (‑120/‑741)	ppiC ← / → rep	peptidyl‑prolyl cis‑trans isomerase C/rep helicase
RA	3,957,560	+C	intergenic (‑129/‑732)	ppiC ← / → rep	peptidyl‑prolyl cis‑trans isomerase C/rep helicase
RA	3,958,261	T→C	intergenic (‑830/‑31)	ppiC ← / → rep	peptidyl‑prolyl cis‑trans isomerase C/rep helicase
RA	3,958,877	2 bp→CG	coding (586‑587/2022 nt)	rep →	rep helicase
RA	3,960,578	2 bp→CG	coding (1266‑1267/1485 nt)	gppA ←	guanosine pentaphosphatase
RA	3,961,588	C→G	R86T (AGG→ACG)	gppA ←	guanosine pentaphosphatase
RA	3,961,605	G→A	R80R (CGC→CGT)	gppA ←	guanosine pentaphosphatase
RA	3,961,966	A→G	intergenic (‑122/+14)	gppA ← / ← rhlB	guanosine pentaphosphatase/putative ATP‑dependent RNA helicase
RA	3,962,662	A→G	M195T (ATG→ACG)	rhlB ←	putative ATP‑dependent RNA helicase
RA	3,964,041	A→G	T4A (ACC→GCC)	rho →	transcription termination factor Rho
RA	3,964,245	T→C	Y72H (TAC→CAC)	rho →	transcription termination factor Rho
RA	3,965,229	A→G	I400V (ATT→GTT)	rho →	transcription termination factor Rho
RA	3,966,992	A→G	E117G (GAG→GGG)	wzzE →	putative transport protein
RA	3,967,307	A→G	D222G (GAC→GGC)	wzzE →	putative transport protein
JC	3,968,317	+CGT	coding (612/1170 nt)	wecB →	UDP‑N‑acetyl glucosamine ‑2‑epimerase
RA	3,968,566	A→G	L287L (TTA→TTG)	wecB →	UDP‑N‑acetyl glucosamine ‑2‑epimerase
RA	3,969,103	2 bp→GC	coding (232‑233/1263 nt)	wecC →	UDP‑N‑acetyl‑D‑mannosaminuronic acid dehydrogenase
RA	3,971,075	2 bp→GC	coding (942‑943/1068 nt)	rffG →	dTDP‑glucose 4,6‑dehydratase
RA	3,972,637	2 bp→GC	coding (430‑431/546 nt)	wecD →	hypothetical protein
RA	3,972,641	G→A	R145H (CGC→CAC)	wecD →	hypothetical protein
RA	3,973,216	C→T	A153A (GCC→GCT)	wecE →	putative regulator
RA	3,974,008	C→T	A40V (GCG→GTG)	wzxE →	putative cytochrome
RA	3,975,313	Δ1 bp	intergenic (+173/‑901)	wzxE → / → wecF	putative cytochrome/TDP‑Fuc4NAc:lipidII transferase
RA	3,978,570	(G)6→7	coding (71/1386 nt)	yifK →	putative amino acid/amine transport protein
RA	3,978,702	C→T	S68F (TCC→TTC)	yifK →	putative amino acid/amine transport protein
RA	3,979,535	+G	coding (1036/1386 nt)	yifK →	putative amino acid/amine transport protein
RA	3,979,546	Δ1 bp	coding (1047/1386 nt)	yifK →	putative amino acid/amine transport protein
RA	3,980,297	(C)8→9	noncoding (79/87 nt)	leuT →	tRNA‑Leu
RA	3,980,918	2 bp→CG	coding (348‑349/1236 nt)	aslB →	putative arylsulfatase regulator
RA	3,980,954	A→G	L128L (TTA→TTG)	aslB →	putative arylsulfatase regulator
RA	3,985,741	T→C	V313V (GTA→GTG)	hemX ←	uroporphyrinogen III methylase
RA	3,987,586	2 bp→GC	coding (814‑815/963 nt)	hemC ←	porphobilinogen deaminase
RA	3,987,807	A→G	I198I (ATT→ATC)	hemC ←	porphobilinogen deaminase
RA	3,987,822	2 bp→CG	coding (578‑579/963 nt)	hemC ←	porphobilinogen deaminase
RA	3,989,898	A→G	Q378R (CAG→CGG)	cyaA →	adenylate cyclase
RA	3,991,539	T→C	N45S (AAT→AGT)  I26T (ATT→ACT)	cyaY ← b3808 →	hypothetical protein hypothetical protein
RA	3,992,894	A→G	T175A (ACG→GCG)	dapF →	diaminopimelate epimerase
RA	3,997,259	A→T	Q555L (CAG→CTG)	uvrD →	DNA‑dependent ATPase I and helicase II
RA	3,998,290	+G	coding (379/486 nt)	b4566 ←	hypothetical protein
RA	4,001,421	2 bp→GC	coding (381‑382/903 nt)	rarD ←	hypothetical protein
RA	4,001,486	2 bp→GC	coding (316‑317/903 nt)	rarD ←	hypothetical protein
RA	4,001,717	+C	coding (86/903 nt)	rarD ←	hypothetical protein
RA	4,004,812	T→C	R448R (CGT→CGC)	recQ →	ATP‑dependent DNA helicase
RA	4,004,979	+G	coding (1511/1833 nt)	recQ →	ATP‑dependent DNA helicase
RA	4,004,984	+CG	coding (1516/1833 nt)	recQ →	ATP‑dependent DNA helicase
RA	4,005,219	T→C	V584A (GTT→GCT)	recQ →	ATP‑dependent DNA helicase
RA	4,005,601	+C	coding (237/282 nt)	b4568 →	hypothetical protein
RA	4,006,483	+C	coding (183/207 nt)	b4554 ←	hypothetical protein
RA	4,007,718	2 bp→CG	coding (943‑944/1023 nt)	pldB →	lysophospholipase L(2)
RA	4,007,907	+GG	intergenic (+109/‑11)	pldB → / → b4555	lysophospholipase L(2)/hypothetical protein
RA	4,008,375	+A	coding (458/516 nt)	b4555 →	hypothetical protein
RA	4,008,391	+C	coding (474/516 nt)	b4555 →	hypothetical protein
RA	4,008,393	C→G	A159G (GCT→GGT)	b4555 →	hypothetical protein
RA	4,008,400	+GAAA	coding (483/516 nt)	b4555 →	hypothetical protein
RA	4,008,404	+G	coding (487/516 nt)	b4555 →	hypothetical protein
RA	4,008,411	+C	coding (494/516 nt)	b4555 →	hypothetical protein
RA	4,008,421	+T	coding (504/516 nt)	b4555 →	hypothetical protein
RA	4,008,429	+TG	coding (512/516 nt)	b4555 →	hypothetical protein
RA	4,008,469	+G	intergenic (+36/‑197)	b4555 → / → yigM	hypothetical protein/hypothetical protein
RA	4,008,473	+G	intergenic (+40/‑193)	b4555 → / → yigM	hypothetical protein/hypothetical protein
RA	4,008,491	2 bp→CG	intergenic (+58/‑174)	b4555 → / → yigM	hypothetical protein/hypothetical protein
RA	4,008,525	+G	intergenic (+92/‑141)	b4555 → / → yigM	hypothetical protein/hypothetical protein
RA	4,008,990	C→T	R109C (CGT→TGT)	yigM →	hypothetical protein
RA	4,011,430	A→G	H263R (CAT→CGT)	metE →	tetrahydropteroyltriglutamate methyltransferase
RA	4,011,749	A→G	A369A (GCA→GCG)	metE →	tetrahydropteroyltriglutamate methyltransferase
RA	4,012,239	A→G	T533A (ACC→GCC)	metE →	tetrahydropteroyltriglutamate methyltransferase
RA	4,013,176	C→G	G182R (GGA→CGA)	ysgA ←	hypothetical protein
RA	4,013,177	+C	coding (543/999 nt)	ysgA ←	hypothetical protein
RA	4,013,717	+G	coding (3/999 nt)	ysgA ←	hypothetical protein
RA	4,013,772	+C	intergenic (‑53/‑246)	ysgA ← / → udp	hypothetical protein/uridine phosphorylase
RA	4,016,743	C→T	P101L (CCC→CTC)	ubiE →	UbiE
RA	4,017,557	A→G	E116G (GAG→GGG)	yigP →	hypothetical protein
RA	4,019,057	A→G	V415V (GTA→GTG)	yigR →	hypothetical protein
RA	4,019,857	C→T	intergenic (+56/‑28)	b3836 → / → b3838	hypothetical protein/hypothetical protein
RA	4,019,860	Δ2 bp	intergenic (+59/‑24)	b3836 → / → b3838	hypothetical protein/hypothetical protein
RA	4,021,493	C→T	A121A (GCC→GCT)  A117A (GCC→GCT)	tatD → b4556 →	Mg‑dependent DNase hypothetical protein
RA	4,021,684	Δ1 bp	coding (542/609 nt)|coding (1/243 nt)	b4556 → tatD →	hypothetical protein Mg‑dependent DNase
RA	4,023,531	T→C	H318H (CAT→CAC)	yigC →	putative oxidoreductase
RA	4,026,252	2 bp→GC	coding (110‑111/1164 nt)	fadA ←	thiolase I
RA	4,031,984	+C	coding (1250/1299 nt)	trkH →	TrkH
RA	4,032,327	A→G	Q44R (CAG→CGG)	hemG →	protoporphyrin oxidase
RA	4,032,390	C→T	A65V (GCG→GTG)	hemG →	protoporphyrin oxidase
RA	4,035,428	A→G	noncoding (330/2905 nt)	rrlA →	23S ribosomal RNA
RA	4,039,960	Δ1 bp	intergenic (+42/‑36)	yihD → / → yihE	hypothetical protein/hypothetical protein
RA	4,041,654	G→A	intergenic (+29/‑125)	dsbA → / → b3861	protein disulfide isomerase I/putative GTP‑binding protein
RA	4,041,671	(T)6→7	intergenic (+46/‑108)	dsbA → / → b3861	protein disulfide isomerase I/putative GTP‑binding protein
RA	4,041,927	A→G	Y50C (TAC→TGC)	b3861 →	putative GTP‑binding protein
RA	4,043,403	A→G	H260H (CAT→CAC)	yihG ←	putative endonuclease
RA	4,043,629	A→G	I185T (ATT→ACT)	yihG ←	putative endonuclease
RA	4,049,140	A→G	I72V (ATT→GTT)	yihI →	hypothetical protein
RA	4,049,149	G→A	G75S (GGC→AGC)	yihI →	hypothetical protein
RA	4,051,144	Δ1 bp	intergenic (+146/+305)	hemN → / ← glnG	O2‑independent coproporphyrinogen III oxidase/GlnG
RA	4,051,170	+C	intergenic (+172/+279)	hemN → / ← glnG	O2‑independent coproporphyrinogen III oxidase/GlnG
RA	4,052,844	T→C	I5M (ATA→ATG)	glnG ←	GlnG
RA	4,056,373	A→G	K129K (AAA→AAG)	yihK →	putative GTP‑binding factor
RA	4,057,759	+C	coding (1773/1776 nt)	yihK →	putative GTP‑binding factor
RA	4,057,859	(T)9→8	intergenic (+97/‑167)	yihK → / → yihL	putative GTP‑binding factor/putative transcriptional regulator
RA	4,059,790	T→C	intergenic (+66/‑36)	yihM → / → yihN	hypothetical protein/putative resistance protein
RA	4,060,112	A→G	Y96C (TAT→TGT)	yihN →	putative resistance protein
RA	4,061,961	Δ1 bp	coding (1386/1458 nt)	b3876 ←	putative permease
RA	4,067,548	T→C	H137R (CAC→CGC)	b3879 ←	putative aldose‑1‑epimerase
RA	4,071,901	G→A	A197T (GCC→ACC)	yihV →	putative kinase
RA	4,074,827	A→G	Q78R (CAG→CGG)	yihZ →	hypothetical protein
RA	4,076,069	T→C	intergenic (+51/‑775)	yiiD → / → yiiE	putative acetyltransferase/hypothetical protein
RA	4,080,195	A→G	C49R (TGT→CGT)	fdoH ←	formate dehydrogenase‑O, iron‑sulfur subunit
RA	4,080,532	A→G	R957R (CGT→CGC)	fdoG ←	formate dehydrogenase‑O, major subunit
RA	4,081,716	A→G	F563L (TTC→CTC)	fdoG ←	formate dehydrogenase‑O, major subunit
RA	4,083,471	A→G	intergenic (‑69/‑125)	fdoG ← / → fdhD	formate dehydrogenase‑O, major subunit/affects formate dehydrogenase‑N
RA	4,085,675	Δ1 bp	intergenic (+38/+13)	yiiG → / ← frvR	hypothetical protein/putative frv operon regulatory protein
RA	4,085,695	T→C	K581R (AAG→AGG)	frvR ←	putative frv operon regulatory protein
RA	4,091,340	A→G	C172R (TGT→CGT)	rhaD ←	rhamnulose‑phosphate aldolase
RA	4,091,351	C→T	G168D (GGC→GAC)	rhaD ←	rhamnulose‑phosphate aldolase
MC JC	4,091,572	3461 bp→29 bp		[rhaD]–rhaB	[rhaD], rhaA, rhaB
RA	4,095,111	G→A	intergenic (‑82/‑206)	rhaB ← / → rhaS	rhamnulokinase/RhaS
RA	4,096,446	C→T	H104Y (CAC→TAC)	rhaR →	RhaR
RA	4,097,623	T→C	M162V (ATG→GTG)	rhaT ←	RhaT
RA	4,099,309	(G)7→8	coding (48/993 nt)	kdgT →	2‑keto‑3‑deoxy‑D‑gluconate transport system
RA	4,103,519	+T	intergenic (‑268/‑530)	cpxR ← / → yiiP	transcriptional regulator in 2‑component system/putative transport system permease protein
RA	4,103,641	T→C	intergenic (‑390/‑408)	cpxR ← / → yiiP	transcriptional regulator in 2‑component system/putative transport system permease protein
RA	4,106,310	A→G	intergenic (+216/‑104)	pfkA → / → sbp	6‑phosphofructokinase I/periplasmic sulfate‑binding protein
RA	4,106,773	A→G	V120V (GTA→GTG)	sbp →	periplasmic sulfate‑binding protein
RA	4,108,133	A→G	G208G (GGA→GGG)	cdh →	CDP‑diacylglycerol phosphotidylhydrolase
RA	4,112,113	T→C	intergenic (‑61/+36)	fpr ← / ← glpX	ferredoxin‑NADP reductase/GlpX
RA	4,113,690	C→T	G371G (GGG→GGA)	glpK ←	glycerol kinase
RA	4,116,372	T→C	intergenic (+32/+53)	yiiU → / ← menG	hypothetical protein/MenG
RA	4,120,133	T→C	T263A (ACG→GCG)	ftsN ←	essential cell division protein
RA	4,120,575	T→C	T115T (ACA→ACG)	ftsN ←	essential cell division protein
RA	4,128,011	C→T	A199A (GCC→GCT)	metL →	aspartokinase II
RA	4,128,355	A→G	H314R (CAC→CGC)	metL →	aspartokinase II
RA	4,128,799	T→C	V462A (GTA→GCA)	metL →	aspartokinase II
RA	4,130,739	A→G	T182A (ACT→GCT)	metF →	5,10‑methylenetetrahydrofolate reductase
RA	4,134,509	A→G	E274E (GAA→GAG)	b3943 →	hypothetical protein
RA	4,137,208	A→G	T27T (ACT→ACC)	talC ←	putative transaldolase
RA	4,137,219	C→T	G24R (GGG→AGG)	talC ←	putative transaldolase
RA	4,139,669	+C	coding (233/330 nt) coding (132/159 nt)	yijI → b4558 ←	hypothetical protein hypothetical protein
RA	4,140,312	G→A	M68I (ATG→ATA)	frwC →	PTS system fructose‑like enzyme IIC component
RA	4,149,200	G→A	A493V (GCG→GTG)	ppc ←	phosphoenolpyruvate carboxylase
RA	4,149,444	A→G	Y412H (TAC→CAC)	ppc ←	phosphoenolpyruvate carboxylase
RA	4,152,979	G→A	G134S (GGT→AGT)	argC →	N‑acetyl‑gamma‑glutamylphosphate reductase
RA	4,158,827	G→T	G61V (GGC→GTC)	yijC →	hypothetical protein
RA	4,158,977	T→C	V111A (GTC→GCC)	yijC →	hypothetical protein
RA	4,161,702	C→G	A162G (GCA→GGA)	btuB →	BtuB
RA	4,173,376	A→G	noncoding (44/76 nt)	thrT →	tRNA‑Thr
RA	4,175,853	G→A	V178I (GTT→ATT)	nusG →	NusG
RA	4,175,949	+G	intergenic (+82/‑76)	nusG → / → rplK	NusG/50S ribosomal subunit protein L11
RA	4,178,668	A→G	intergenic (+165/‑155)	rplL → / → rpoB	50S ribosomal subunit protein L7/L12/RNA polymerase beta subunit
RA	4,185,057	C→T	D710D (GAC→GAT)	rpoC →	RNA polymerase beta prime subunit
RA	4,185,074	A→G	Q716R (CAG→CGG)	rpoC →	RNA polymerase beta prime subunit
RA	4,194,577	2 bp→GC	coding (97‑98/774 nt)	yjaD →	hypothetical protein
RA	4,198,118	A→G	D87G (GAC→GGC)	hupA →	DNA‑binding protein HU‑alpha
RA	4,201,958	G→A	W354* (TGG→TAG)	hydG →	HydG
RA	4,203,198	Δ1 bp	coding (312/1290 nt)	purD ←	phosphoribosylglycinamide synthetase
RA	4,203,421	A→G	V30A (GTT→GCT)	purD ←	phosphoribosylglycinamide synthetase
RA	4,205,438	T→C	intergenic (‑328/‑287)	purH ← / → rrsE	phosphoribosylaminoimidazolecarboxamideformyltra nsferase/16S ribosomal RNA
RA	4,211,571	A→G	R44R (CGT→CGC)	yjaB ←	hypothetical protein
RA	4,215,052	A→G	E122G (GAG→GGG)	aceA →	isocitrate lyase
RA	4,216,494	A→G	Y107C (TAC→TGC)	aceK →	isocitrate dehydrogenase kinase/phosphatase
RA	4,219,434	A→G	A211A (GCT→GCC)	arp ←	Arp
RA	4,225,050	A→G	E1215G (GAG→GGG)	metH →	B12‑dependent homocysteine‑N5‑methyltetrahydrofolate transmethylase
RA	4,225,139	T→C	intergenic (+49/‑171)	metH → / → yjbB	B12‑dependent homocysteine‑N5‑methyltetrahydrofolate transmethylase/putative alpha helix protein
RA	4,227,795	A→G	intergenic (‑74/‑138)	pepE ← / → yjbC	peptidase E/hypothetical protein
RA	4,236,786	A→G	Y525C (TAC→TGC)	yjbH →	hypothetical protein
RA	4,244,543	T→C	F61L (TTC→CTC)	malK →	ATP‑binding component of transport system for maltose
RA	4,246,188	A→G	E213E (GAA→GAG)	lamB →	phage lambda receptor protein
RA	4,250,949	A→G	I119V (ATT→GTT)	ubiA →	4‑hydroxybenzoate‑octaprenyltransferase
RA	4,251,088	T→C	V165A (GTG→GCG)	ubiA →	4‑hydroxybenzoate‑octaprenyltransferase
RA	4,251,782	A→G	V755A (GTG→GCG)	plsB ←	glycerol‑3‑phosphate acyltransferase
RA	4,259,162	A→G	intergenic (+277/‑86)	yjbM → / → yjbN	hypothetical protein/hypothetical protein
RA	4,261,143	T→C	E223G (GAA→GGA)	qor ←	quinone oxidoreductase
RA	4,265,202	A→G	L170L (TTA→TTG)	tyrB →	tyrosine aminotransferase
RA	4,270,212	A→G	R413R (CGT→CGC)	uvrA ←	excision nuclease subunit A
RA	4,270,235	A→G	C406R (TGC→CGC)	uvrA ←	excision nuclease subunit A
RA	4,284,295	A→G	V219A (GTA→GCA)	acs ←	acetyl‑CoA synthetase
RA	4,293,960	+GC	intergenic (+587/+55)	gltP → / ← yjcO	glutamate‑aspartate symport protein/hypothetical protein
RA	4,295,417	G→A	P510L (CCG→CTG)	fdhF ←	selenopolypeptide subunit of formate dehydrogenase H
RA	4,297,280	T→C	T444A (ACC→GCC)	yjcP ←	hypothetical protein
RA	4,298,670	A→G	L616S (TTG→TCG)	yjcQ ←	hypothetical protein
RA	4,302,652	A→G	Y513H (TAT→CAT)	yjcS ←	hypothetical protein
RA	4,307,603	T→C	E319E (GAA→GAG)	yjcW ←	putative ATP‑binding component of a transport system
RA	4,307,748	A→G	V271A (GTC→GCC)	yjcW ←	putative ATP‑binding component of a transport system
RA	4,311,496	+C	coding (301/408 nt)	phnQ ←	hypothetical protein
RA	4,315,907	+A	coding (436/759 nt)	phnK ←	ATP‑binding component of phosphonate transport
RA	4,316,203	T→A	Q47L (CAG→CTG)	phnK ←	ATP‑binding component of phosphonate transport
RA	4,328,807	A→G	Q243R (CAG→CGG)	proP →	proline permease II
RA	4,333,152	A→G	L16P (CTA→CCA)	yjdB ←	hypothetical protein
RA	4,348,017	C→T	A408A (GCG→GCA)	yjdH ←	putative 2‑component sensor protein
RA	4,348,109	C→T	A378T (GCC→ACC)	yjdH ←	putative 2‑component sensor protein
RA	4,356,775	C→T	A279T (GCC→ACC)	cadB ←	transport of lysine/cadaverine
RA	4,356,994	C→T	A206T (GCA→ACA)	cadB ←	transport of lysine/cadaverine
RA	4,363,427	T→C	T309A (ACT→GCT)	dcuA ←	anaerobic dicarboxylate transport
RA	4,366,832	T→C	M387V (ATG→GTG)	yjeH ←	putative transport
RA	4,368,258	A→G	intergenic (‑268/‑8)	yjeH ← / → mopB	putative transport/GroES
RA	4,369,183	A→G	Q194R (CAG→CGG)	mopA →	GroEL
RA	4,369,637	T→C	R345R (CGT→CGC)	mopA →	GroEL
RA	4,370,182	A→G	N527S (AAC→AGC)	mopA →	GroEL
RA	4,372,457	A→G	V260A (GTG→GCG)	yjeK ←	hypothetical protein
RA	4,381,510	T→C	Y46H (TAC→CAC)	yjeM →	putative transport
RA	4,382,443	A→G	T357A (ACG→GCG)	yjeM →	putative transport
RA	4,385,717	T→C	N411S (AAC→AGC)	yjeP ←	putative periplasmic binding protein
RA	4,388,932	A→G	A52A (GCT→GCC)	b4161 ←	hypothetical protein
RA	4,392,958	G→A	G439S (GGC→AGC)	yjeF →	hypothetical protein
RA	4,394,260	C→T	G206G (GGC→GGT)	amiB →	N‑acetylmuramoyl‑l‑alanine amidase II
RA	4,395,292	T→A	S101R (AGT→AGA)	mutL →	MutL
RA	4,406,298	A→G	Q689Q (CAA→CAG)	b4179 →	hypothetical protein
RA	4,408,560	G→A	A144T (GCC→ACC)	yjfJ →	hypothetical protein
RA	4,414,467	A→G	intergenic (‑119/‑63)	b4189 ← / → yjfP	hypothetical protein/hypothetical protein
RA	4,422,211	T→C	A53A (GCA→GCG)	yjfY ←	hypothetical protein
RA	4,427,095	A→G	T195A (ACC→GCC)	b4207 →	FKBP‑type 22KD peptidyl‑prolyl cis‑trans isomerase (rotamase)
RA	4,428,092	A→G	G217G (GGA→GGG)	cycA →	transport of D‑alanine, D‑serine, and glycine
RA	4,431,142	T→C	H154R (CAC→CGC)	ytfG ←	putative oxidoreductase
RA	4,431,925	A→G	I79V (ATC→GTC)	b4212 →	hypothetical protein
RA	4,435,684	+A	coding (400/501 nt)	ytfI →	hypothetical protein
RA	4,435,689	C→T	D135D (GAC→GAT)	ytfI →	hypothetical protein
RA	4,437,861	A→G	V311A (GTG→GCG)	ytfL ←	putative transport protein
RA	4,440,519	A→G	E187E (GAA→GAG)	ytfM →	hypothetical protein
RA	4,441,383	T→C	S475S (AGT→AGC)	ytfM →	hypothetical protein
RA	4,444,690	T→C	V1001A (GTA→GCA)	ytfN →	hypothetical protein
RA	4,448,541	+C	intergenic (+46/‑92)	ytfQ → / → ytfR	putative LACI‑type transcriptional regulator/YtfR
RA	4,448,543	+C	intergenic (+48/‑90)	ytfQ → / → ytfR	putative LACI‑type transcriptional regulator/YtfR
RA	4,449,738	+G	coding (1106/1254 nt)	ytfR →	YtfR
RA	4,450,334	G→A	A64T (GCT→ACT)	ytfT →	putative transport system permease protein
RA	4,453,403	T→C	G15G (GGT→GGC)	yjfG →	putative ligase
RA	4,462,876	T→C	V293V (GTA→GTG)	treB ←	PTS trehalose‑specific system enzyme IIBC
RA	4,470,659	T→C	D42G (GAC→GGC)	yjgH ←	hypothetical protein
RA	4,472,408	A→G	intergenic (+117/‑28)	b4251 → / → b4252	hypothetical protein/hypothetical protein
RA	4,473,339	A→G	E122G (GAA→GGA)	yjgL →	hypothetical protein
RA	4,474,826	+A	intergenic (+1/+44)	yjgL → / ← argI	hypothetical protein/ornithine carbamoyltransferase 1
MC JC	4,474,849	20 bp→30 bp	intergenic (+24/+2)	yjgL → / ← argI	hypothetical protein/ornithine carbamoyltransferase 1
RA	4,474,882	C→T	T331T (ACG→ACA)	argI ←	ornithine carbamoyltransferase 1
RA	4,475,662	A→G	G71G (GGT→GGC)	argI ←	ornithine carbamoyltransferase 1
RA	4,476,619	A→G	V91A (GTG→GCG)	b4256 ←	hypothetical protein
RA	4,477,041	Δ1 bp	intergenic (‑151/‑269)	b4256 ← / → yjgN	hypothetical protein/hypothetical protein
RA	4,477,068	+C	intergenic (‑178/‑242)	b4256 ← / → yjgN	hypothetical protein/hypothetical protein
RA	4,477,281	Δ1 bp	intergenic (‑391/‑29)	b4256 ← / → yjgN	hypothetical protein/hypothetical protein
RA	4,477,321	Δ1 bp	coding (12/1182 nt)	yjgN →	hypothetical protein
RA	4,478,503	(A)7→6	intergenic (+12/+47)	yjgN → / ← valS	hypothetical protein/valine tRNA synthetase
RA	4,478,511	Δ1 bp	intergenic (+20/+39)	yjgN → / ← valS	hypothetical protein/valine tRNA synthetase
RA	4,478,520	C→T	intergenic (+29/+30)	yjgN → / ← valS	hypothetical protein/valine tRNA synthetase
RA	4,478,527	Δ1 bp	intergenic (+36/+23)	yjgN → / ← valS	hypothetical protein/valine tRNA synthetase
RA	4,483,536	T→C	intergenic (‑17/‑250)	pepA ← / → yjgP	aminopeptidase A/I/hypothetical protein
RA	4,484,261	T→C	L159P (CTG→CCG)	yjgP →	hypothetical protein
RA	4,484,843	T→C	V353A (GTC→GCC)	yjgP →	hypothetical protein
RA	4,484,849	G→A	R355H (CGC→CAC)	yjgP →	hypothetical protein
RA	4,502,304	(T)5→6	coding (679/1218 nt)	b4279 →	putative transport protein
RA	4,511,365	A→G	L173P (CTT→CCT)	fecB ←	FecB
RA	4,511,632	T→C	Q84R (CAG→CGG)	fecB ←	FecB
RA	4,519,062	A→G	I176T (ATA→ACA)	yjhF ←	putative transport system permease
RA	4,520,082	A→G	H527H (CAT→CAC)	yjhG ←	putative dehydratase
RA	4,542,643	Δ1 bp	intergenic (+46/‑22)	b4316 → / → fimD	Pil/FimD
RA	4,544,170	T→C	I502I (ATT→ATC)	fimD →	FimD
RA	4,544,274	T→C	L537P (CTC→CCC)	fimD →	FimD
RA	4,549,566	A→G	D121G (GAC→GGC)	uxuA →	mannonate hydrolase
RA	4,551,614	T→C	L382P (CTG→CCG)	uxuB →	D‑mannonate oxidoreductase
RA	4,555,020	A→G	M280T (ATG→ACG)	yjiE ←	putative transcriptional regulator LYSR‑type
RA	4,562,600	T→C	T274A (ACC→GCC)	yjiM ←	hypothetical protein
RA	4,572,726	T→C	P341P (CCT→CCC)	yjiU →	hypothetical protein
RA	4,573,190	Δ1 bp	coding (1487/1542 nt)	yjiU →	hypothetical protein
RA	4,575,878	A→G	Y344H (TAT→CAT)	mcrB ←	McrB
RA	4,583,050	G→A	Q446* (CAA→TAA)	hsdR ←	endonuclease R
RA	4,593,254	2 bp→GC	coding (59‑60/807 nt)	yjjM ←	hypothetical protein
RA	4,593,336	+G	intergenic (‑23/‑208)	yjjM ← / → yjjN	hypothetical protein/putative oxidoreductase
RA	4,600,078	C→T	W135* (TGG→TAG)	yjjP ←	putative structural protein
RA	4,601,614	(A)7→6	coding (569/726 nt)	yjjQ →	putative regulator
RA	4,603,785	A→G	noncoding (71/87 nt)	leuP ←	tRNA‑Leu
RA	4,604,832	A→G	R146R (CGT→CGC)	yjjT ←	hypothetical protein
RA	4,606,400	G→A	Q62Q (CAG→CAA)	yjjG →	putative phosphatase
RA	4,608,120	A→G	T380A (ACC→GCC)	prfC →	peptide chain release factor RF‑3
RA	4,608,595	2 bp→GC	intergenic (+23/‑369)	prfC → / → osmY	peptide chain release factor RF‑3/OsmY
RA	4,614,238	G→T	L133I (CTA→ATA)	yjjI ←	hypothetical protein
RA	4,619,453	T→G	V39G (GTG→GGG)	yjjJ →	hypothetical protein
RA	4,621,644	A→G	W15R (TGG→CGG)	lplA ←	lipoate‑protein ligase A
RA	4,625,205	T→C	L108L (TTG→CTG)	nadR →	NadR
RA	4,634,385	A→G	T41A (ACG→GCG)	creC →	CreC

Unassigned missing coverage evidence
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	223507–224771	225527–224795	25–2021	148 [141]	[141] 147	rrsH–[alaV]	rrsH,ileV,[alaV]
*	*	÷	NC_000913	363576	365526	1951	147 [140]	[0] 287	lacZ	beta‑D‑galactosidase
*	*	÷	NC_000913	2031644	2032073	430	144 [142]	[140] 144	[b1964]	[b1964]
*	*	÷	NC_000913	2064237–2065270	2065270	1–1034	148 [142]	[141] 144	[trs56]	[trs56]
*	*	÷	NC_000913	2518981–2519026	2519113–2519087	62–133	145 [141]	[138] 143	[valU]–[valX]	[valU],[valX]
*	*	÷	NC_000913	2727640–2728921	2728921	1–1282	151 [142]	[142] 146	rrsG	16S ribosomal RNA
*	*	÷	NC_000913	3421328–3421870	3422239–3421880	11–912	145 [142]	[140] 145	[rrfD]–[rrlD]	[rrfD],[rrlD]
*	*	÷	NC_000913	3616942–3618714	3620222–3620006	1293–3281	145 [142]	[141] 144	rhsB	RhsB
*	*	÷	NC_000913	3943594–3943706	3943804–3943771	66–211	144 [139]	[142] 146	rrlC	23S ribosomal RNA

Unassigned new junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	269765 =	NA (NA)	242 (0.920)	126/184	0.3	99.6%	coding (300/405 nt)	yi91a	hypothetical protein
	?	NC_000913	= 370983	1 (0.000)					coding (536/882 nt)	mhpC	2‑hydroxy‑6‑ketonona‑2,4‑dienedioic acid hydrolase
*	?	NC_000913	= 279335	NA (NA)	296 (1.130)	127/184	0.3	98.0%	coding (252/339 nt)	b4505	hypothetical protein
	?	NC_000913	370982 =	6 (0.020)					coding (535/882 nt)	mhpC	2‑hydroxy‑6‑ketonona‑2,4‑dienedioic acid hydrolase
*	?	NC_000913	365527 =	0 (0.000)	268 (1.060)	132/178	0.1	71.6%	coding (3/3075 nt)	lacZ	beta‑D‑galactosidase
	?	NC_000913	4589230 =	213 (0.840)					coding (4/1656 nt)	tsr	methyl‑accepting chemotaxis protein I
*	?	NC_000913	3192559 =	291 (1.110)	194 (0.930) +ATGTGTTAATGAAACCTTC	85/146	1.2	46.6%	intergenic (+18/+402)	b3051/b3052	putative membrane protein/putative kinase
	?	NC_000913	= 3192916	271 (1.030)					intergenic (+375/+45)	b3051/b3052	putative membrane protein/putative kinase
*	?	NC_000913	3349258 =	18 (0.070)	307 (1.170)	135/184	0.1	94.5%	coding (1403/2331 nt)	arcB	aerobic respiration sensor‑response protein
	?	NC_000913	= 3349263	NA (NA)					coding (1398/2331 nt)	arcB	aerobic respiration sensor‑response protein