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

Predicted mutations
evidence	position	mutation	freq	annotation	gene	description
RA	9,907	A→C	8.5%	intergenic (+14/+21)	mog → / ← satP	molybdochelatase incorporating molybdenum into molybdopterin/succinate‑acetate transporter
RA	9,908	G→T	7.6%	intergenic (+15/+20)	mog → / ← satP	molybdochelatase incorporating molybdenum into molybdopterin/succinate‑acetate transporter
RA	53,272	T→G	5.0%	M49L (ATG→CTG)	pdxA ←	4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent
RA	53,376	G→A	12.2%	P14L (CCC→CTC)	pdxA ←	4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent
RA	53,379	T→C	11.7%	E13G (GAG→GGG)	pdxA ←	4‑hydroxy‑L‑threonine phosphate dehydrogenase, NAD‑dependent
RA	72,198	A→G	7.3%	intergenic (+83/+31)	yabI → / ← thiQ	DedA family inner membrane protein/thiamine/thiamine pyrophosphate ABC transporter ATPase
RA	72,199	A→C	6.6%	intergenic (+84/+30)	yabI → / ← thiQ	DedA family inner membrane protein/thiamine/thiamine pyrophosphate ABC transporter ATPase
RA	72,205	T→G	7.0%	intergenic (+90/+24)	yabI → / ← thiQ	DedA family inner membrane protein/thiamine/thiamine pyrophosphate ABC transporter ATPase
RA	72,206	C→A	7.1%	intergenic (+91/+23)	yabI → / ← thiQ	DedA family inner membrane protein/thiamine/thiamine pyrophosphate ABC transporter ATPase
RA	83,587	A→C	11.2%	intergenic (‑58/+35)	leuA ← / ← leuL	2‑isopropylmalate synthase/leu operon leader peptide
RA	83,590	G→T	10.2%	intergenic (‑61/+32)	leuA ← / ← leuL	2‑isopropylmalate synthase/leu operon leader peptide
RA	106,831	T→A	5.1%	I92N (ATT→AAT)	lpxC →	UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase
RA	111,013	G→A	11.9%	intergenic (+29/‑31)	secA → / → mutT	preprotein translocase subunit, ATPase/dGTP‑preferring nucleoside triphosphate pyrophosphohydrolase
RA	111,016	T→C	12.5%	intergenic (+32/‑28)	secA → / → mutT	preprotein translocase subunit, ATPase/dGTP‑preferring nucleoside triphosphate pyrophosphohydrolase
RA	120,154	Δ1 bp	8.8%	intergenic (+19/+24)	ampE → / ← aroP	ampicillin resistance inner membrane protein; putative signaling protein in beta‑lactamase regulation/aromatic amino acid transporter
RA	120,158:1	+A	9.5%	intergenic (+23/+20)	ampE → / ← aroP	ampicillin resistance inner membrane protein; putative signaling protein in beta‑lactamase regulation/aromatic amino acid transporter
RA	136,530	C→T	5.5%	intergenic (‑66/+40)	speE ← / ← yacC	spermidine synthase (putrescine aminopropyltransferase)/PulS_OutS family protein
RA	136,532	G→C	5.2%	intergenic (‑68/+38)	speE ← / ← yacC	spermidine synthase (putrescine aminopropyltransferase)/PulS_OutS family protein
RA	136,535	G→C	5.4%	intergenic (‑71/+35)	speE ← / ← yacC	spermidine synthase (putrescine aminopropyltransferase)/PulS_OutS family protein
RA	136,537	A→G	5.4%	intergenic (‑73/+33)	speE ← / ← yacC	spermidine synthase (putrescine aminopropyltransferase)/PulS_OutS family protein
RA	143,533	T→C	7.4%	L252P (CTG→CCG) ‡	yadG →	putative ABC transporter ATPase
RA	143,534	G→A	7.6%	L252L (CTG→CTA) ‡	yadG →	putative ABC transporter ATPase
RA	164,620	C→T	7.1%	intergenic (+86/‑110)	hrpB → / → mrcB	putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase
RA	164,621	A→G	7.1%	intergenic (+87/‑109)	hrpB → / → mrcB	putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase
RA	167,291	G→A	5.9%	intergenic (+27/‑193)	mrcB → / → fhuA	fused glycosyl transferase and transpeptidase/ferrichrome outer membrane transporter
RA	167,293	G→C	5.9%	intergenic (+29/‑191)	mrcB → / → fhuA	fused glycosyl transferase and transpeptidase/ferrichrome outer membrane transporter
RA	167,295	T→C	6.2%	intergenic (+31/‑189)	mrcB → / → fhuA	fused glycosyl transferase and transpeptidase/ferrichrome outer membrane transporter
RA	169,748	T→A	5.8%	intergenic (+21/‑30)	fhuA → / → fhuC	ferrichrome outer membrane transporter/iron(3+)‑hydroxamate import ABC transporter ATPase
RA	169,749	T→A	5.4%	intergenic (+22/‑29)	fhuA → / → fhuC	ferrichrome outer membrane transporter/iron(3+)‑hydroxamate import ABC transporter ATPase
RA	191,720	G→A	6.7%	intergenic (+12/‑135)	tsf → / → pyrH	translation elongation factor EF‑Ts/uridylate kinase
RA	191,728	T→C	5.0%	intergenic (+20/‑127)	tsf → / → pyrH	translation elongation factor EF‑Ts/uridylate kinase
RA	191,729	G→T	5.4%	intergenic (+21/‑126)	tsf → / → pyrH	translation elongation factor EF‑Ts/uridylate kinase
RA	191,730	A→C	5.0%	intergenic (+22/‑125)	tsf → / → pyrH	translation elongation factor EF‑Ts/uridylate kinase
RA	191,731	G→A	5.0%	intergenic (+23/‑124)	tsf → / → pyrH	translation elongation factor EF‑Ts/uridylate kinase
RA	191,739	T→C	6.8%	intergenic (+31/‑116)	tsf → / → pyrH	translation elongation factor EF‑Ts/uridylate kinase
RA	242,344	C→G	6.8%	P320P (CCG→CCC)	fadE ←	acyl coenzyme A dehydrogenase
RA	242,502	C→G	8.6%	V268L (GTG→CTG)	fadE ←	acyl coenzyme A dehydrogenase
RA	248,868	C→G	8.0%	pseudogene (1203/1713 nt)	lfhA ←	pseudogene, flagellar system protein, promoterless fragment; flagellar biosynthesis
RA	256,449	T→C	7.4%	intergenic (+14/‑78)	gpt → / → frsA	xanthine phosphoribosyltransferase; xanthine‑guanine phosphoribosyltransferase/fermentation‑respiration switch protein; PTS Enzyme IIA(Glc)‑binding protein; pNP‑butyrate esterase activity
RA	256,454	C→G	7.6%	intergenic (+19/‑73)	gpt → / → frsA	xanthine phosphoribosyltransferase; xanthine‑guanine phosphoribosyltransferase/fermentation‑respiration switch protein; PTS Enzyme IIA(Glc)‑binding protein; pNP‑butyrate esterase activity
RA	256,459	G→A	7.8%	intergenic (+24/‑68)	gpt → / → frsA	xanthine phosphoribosyltransferase; xanthine‑guanine phosphoribosyltransferase/fermentation‑respiration switch protein; PTS Enzyme IIA(Glc)‑binding protein; pNP‑butyrate esterase activity
MC JC	257,908	Δ776 bp	100%		[crl]	[crl]
RA	285,882	T→G	6.5%	I163S (ATC→AGC)	yagG →	CP4‑6 prophage; putative sugar transporter
RA	285,887	C→A	5.6%	L165M (CTG→ATG)	yagG →	CP4‑6 prophage; putative sugar transporter
RA	299,377	A→T	7.2%	Y520N (TAC→AAC)	paoC ←	PaoABC aldehyde oxidoreductase, Moco‑containing subunit
RA	299,378	A→T	7.3%	V519V (GTT→GTA)	paoC ←	PaoABC aldehyde oxidoreductase, Moco‑containing subunit
RA	324,874	T→G	5.4%	N164T (AAC→ACC) ‡	ykgH ←	putative inner membrane protein
RA	324,875	T→A	5.5%	N164Y (AAC→TAC) ‡	ykgH ←	putative inner membrane protein
RA	324,876	C→A	6.3%	R163S (AGG→AGT)	ykgH ←	putative inner membrane protein
RA	336,866	G→C	9.2%	G30A (GGC→GCC)	yahF →	putative NAD(P)‑binding succinyl‑CoA synthase
RA	383,897	C→T	6.3%	M13I (ATG→ATA) ‡	yaiP ←	putative family 2 glycosyltransferase
RA	383,898	A→G	6.5%	M13T (ATG→ACG) ‡	yaiP ←	putative family 2 glycosyltransferase
RA	385,724	T→A	5.8%	W165R (TGG→AGG)	tauA →	taurine ABC transporter periplasmic binding protein
RA	431,107	A→T	12.8%	intergenic (+155/+22)	yajD → / ← tsx	HNH nuclease family protein/nucleoside channel, receptor of phage T6 and colicin K
RA	431,109	A→T	12.7%	intergenic (+157/+20)	yajD → / ← tsx	HNH nuclease family protein/nucleoside channel, receptor of phage T6 and colicin K
RA	431,111	A→T	12.8%	intergenic (+159/+18)	yajD → / ← tsx	HNH nuclease family protein/nucleoside channel, receptor of phage T6 and colicin K
RA	446,786	C→T	5.6%	intergenic (‑120/+29)	yajR ← / ← cyoE	putative transporter/protoheme IX farnesyltransferase
RA	446,787	G→A	5.8%	intergenic (‑121/+28)	yajR ← / ← cyoE	putative transporter/protoheme IX farnesyltransferase
RA	446,788	T→C	5.5%	intergenic (‑122/+27)	yajR ← / ← cyoE	putative transporter/protoheme IX farnesyltransferase
RA	446,789	A→G	5.4%	intergenic (‑123/+26)	yajR ← / ← cyoE	putative transporter/protoheme IX farnesyltransferase
RA	454,853	T→C	12.8%	intergenic (+64/‑280)	bolA → / → tig	stationary‑phase morphogene, transcriptional repressor for mreB; also regulator for dacA, dacC, and ampC/peptidyl‑prolyl cis/trans isomerase (trigger factor)
RA	454,856	G→A	13.6%	intergenic (+67/‑277)	bolA → / → tig	stationary‑phase morphogene, transcriptional repressor for mreB; also regulator for dacA, dacC, and ampC/peptidyl‑prolyl cis/trans isomerase (trigger factor)
RA	464,354	C→A	5.7%	intergenic (+46/‑48)	ybaV → / → fadM	putative competence‑suppressing periplasmic helix‑hairpin‑helix DNA‑binding protein/long‑chain acyl‑CoA thioesterase III
RA	464,356	A→T	5.5%	intergenic (+48/‑46)	ybaV → / → fadM	putative competence‑suppressing periplasmic helix‑hairpin‑helix DNA‑binding protein/long‑chain acyl‑CoA thioesterase III
RA	464,358	T→G	5.3%	intergenic (+50/‑44)	ybaV → / → fadM	putative competence‑suppressing periplasmic helix‑hairpin‑helix DNA‑binding protein/long‑chain acyl‑CoA thioesterase III
RA	475,971	C→G	15.1%	intergenic (+20/+11)	ybaY → / ← ybaZ	outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL
RA	475,972	C→G	15.4%	intergenic (+21/+10)	ybaY → / ← ybaZ	outer membrane lipoprotein/excision repair protein, alkyltransferase‑like protein ATL
RA	481,225	T→G	5.1%	intergenic (‑517/+29)	tomB ← / ← acrB	Hha toxicity attenuator; conjugation‑related protein/multidrug efflux system protein
RA	481,228	C→A	6.0%	intergenic (‑520/+26)	tomB ← / ← acrB	Hha toxicity attenuator; conjugation‑related protein/multidrug efflux system protein
RA	501,455	A→G	8.3%	intergenic (+26/+107)	gsk → / ← ybaL	inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter
RA	518,860	A→G	5.4%	F97S (TTC→TCC)	ybbO ←	putative oxidoreductase
RA	518,863	C→T	5.3%	G96E (GGA→GAA)	ybbO ←	putative oxidoreductase
RA	533,846	T→C	8.9%	intergenic (+20/‑70)	allR → / → gcl	glyoxylate‑inducible transcriptional repressor of all and gcl operons/glyoxylate carboligase
RA	533,849	G→A	8.5%	intergenic (+23/‑67)	allR → / → gcl	glyoxylate‑inducible transcriptional repressor of all and gcl operons/glyoxylate carboligase
RA	543,091	G→C	6.3%	intergenic (+58/+170)	glxK → / ← allE	glycerate kinase II/S‑ureidoglycine aminohydrolase
RA	543,094	G→C	6.2%	intergenic (+61/+167)	glxK → / ← allE	glycerate kinase II/S‑ureidoglycine aminohydrolase
RA	604,753	A→C	5.1%	intergenic (‑90/+18)	ybdG ← / ← nfsB	mechanosensitive channel protein, miniconductance/dihydropteridine reductase, NAD(P)H‑dependent, oxygen‑insensitive
RA	605,022	C→G	5.3%	D135H (GAT→CAT)	nfsB ←	dihydropteridine reductase, NAD(P)H‑dependent, oxygen‑insensitive
RA	605,025	C→G	5.3%	D134H (GAT→CAT)	nfsB ←	dihydropteridine reductase, NAD(P)H‑dependent, oxygen‑insensitive
RA	639,654	T→C	10.5%	intergenic (+146/‑99)	ahpC → / → ahpF	alkyl hydroperoxide reductase, C22 subunit/alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding
RA	639,657	G→A	10.4%	intergenic (+149/‑96)	ahpC → / → ahpF	alkyl hydroperoxide reductase, C22 subunit/alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding
RA	644,030	A→G	6.0%	intergenic (‑63/+167)	rnk ← / ← rna	regulator of nucleoside diphosphate kinase/ribonuclease I
RA	644,034	T→C	5.3%	intergenic (‑67/+163)	rnk ← / ← rna	regulator of nucleoside diphosphate kinase/ribonuclease I
RA	644,036	A→T	5.9%	intergenic (‑69/+161)	rnk ← / ← rna	regulator of nucleoside diphosphate kinase/ribonuclease I
RA	644,038	G→A	5.4%	intergenic (‑71/+159)	rnk ← / ← rna	regulator of nucleoside diphosphate kinase/ribonuclease I
RA	644,042	C→T	5.4%	intergenic (‑75/+155)	rnk ← / ← rna	regulator of nucleoside diphosphate kinase/ribonuclease I
RA	657,531	T→G	5.6%	intergenic (+30/+24)	cspE → / ← flc	constitutive cold shock family transcription antitermination protein; negative regulator of cspA transcription; RNA melting protein; ssDNA‑binding protein/fluoride efflux channel, dual topology membrane protein
RA	657,533	A→T	6.0%	intergenic (+32/+22)	cspE → / ← flc	constitutive cold shock family transcription antitermination protein; negative regulator of cspA transcription; RNA melting protein; ssDNA‑binding protein/fluoride efflux channel, dual topology membrane protein
RA	657,535	C→A	6.0%	intergenic (+34/+20)	cspE → / ← flc	constitutive cold shock family transcription antitermination protein; negative regulator of cspA transcription; RNA melting protein; ssDNA‑binding protein/fluoride efflux channel, dual topology membrane protein
RA	659,204	C→T	7.1%	intergenic (+54/+47)	tatE → / ← lipA	TatABCE protein translocation system subunit/lipoate synthase
RA	659,205	A→T	7.4%	intergenic (+55/+46)	tatE → / ← lipA	TatABCE protein translocation system subunit/lipoate synthase
RA	659,206	A→T	7.3%	intergenic (+56/+45)	tatE → / ← lipA	TatABCE protein translocation system subunit/lipoate synthase
RA	659,207	A→G	7.2%	intergenic (+57/+44)	tatE → / ← lipA	TatABCE protein translocation system subunit/lipoate synthase
RA	665,094	G→C	9.2%	P33A (CCT→GCT)	rlpA ←	septal ring protein, suppressor of prc, minor lipoprotein
RA	672,110	G→A	7.7%	T26I (ACC→ATC)	lptE ←	LPS assembly OM complex LptDE, lipoprotein component
RA	672,113	T→C	7.8%	D25G (GAT→GGT)	lptE ←	LPS assembly OM complex LptDE, lipoprotein component
RA	681,694	A→G	9.3%	intergenic (+31/+29)	djlC → / ← hscC	J domain‑containing HscC co‑chaperone; Hsc56/Hsp70 family chaperone Hsc62; RpoD‑binding transcription inhibitor
RA	681,699	T→A	9.1%	intergenic (+36/+24)	djlC → / ← hscC	J domain‑containing HscC co‑chaperone; Hsc56/Hsp70 family chaperone Hsc62; RpoD‑binding transcription inhibitor
RA	681,700	T→A	9.1%	intergenic (+37/+23)	djlC → / ← hscC	J domain‑containing HscC co‑chaperone; Hsc56/Hsp70 family chaperone Hsc62; RpoD‑binding transcription inhibitor
RA	681,705	C→T	8.9%	intergenic (+42/+18)	djlC → / ← hscC	J domain‑containing HscC co‑chaperone; Hsc56/Hsp70 family chaperone Hsc62; RpoD‑binding transcription inhibitor
RA	699,556	C→T	6.3%	intergenic (‑379/+18)	asnB ← / ← umpH	asparagine synthetase B/UMP phosphatase
RA	699,559	A→G	6.2%	intergenic (‑382/+15)	asnB ← / ← umpH	asparagine synthetase B/UMP phosphatase
RA	710,170	C→T	9.7%	intergenic (+54/+30)	chiQ → / ← fur	chitosugar‑induced verified lipoprotein/ferric iron uptake regulon transcriptional repressor; autorepressor
RA	710,173	A→G	9.4%	intergenic (+57/+27)	chiQ → / ← fur	chitosugar‑induced verified lipoprotein/ferric iron uptake regulon transcriptional repressor; autorepressor
RA	747,895	C→G	8.0%	intergenic (‑126/+26)	abrB ← / ← ybgO	regulator of aidB expression; inner membrane protein/putative fimbrial protein
RA	747,897	G→C	7.4%	intergenic (‑128/+24)	abrB ← / ← ybgO	regulator of aidB expression; inner membrane protein/putative fimbrial protein
RA	747,900	G→C	9.0%	intergenic (‑131/+21)	abrB ← / ← ybgO	regulator of aidB expression; inner membrane protein/putative fimbrial protein
RA	747,902	C→G	7.5%	intergenic (‑133/+19)	abrB ← / ← ybgO	regulator of aidB expression; inner membrane protein/putative fimbrial protein
RA	770,805	G→A	12.3%	intergenic (+194/‑653)	mngB → / → cydA	alpha‑mannosidase/cytochrome d terminal oxidase, subunit I
RA	770,810	T→C	11.3%	intergenic (+199/‑648)	mngB → / → cydA	alpha‑mannosidase/cytochrome d terminal oxidase, subunit I
RA	781,326	A→T	5.3%	intergenic (+104/‑43)	lysY → / → lysZ	tRNA‑Lys/tRNA‑Lys
RA	781,668	C→T	13.5%	intergenic (+16/‑417)	lysQ → / → nadA	tRNA‑Lys/quinolinate synthase, subunit A
RA	781,670	A→T	14.0%	intergenic (+18/‑415)	lysQ → / → nadA	tRNA‑Lys/quinolinate synthase, subunit A
RA	781,672	A→G	13.1%	intergenic (+20/‑413)	lysQ → / → nadA	tRNA‑Lys/quinolinate synthase, subunit A
RA	781,824	C→T	6.2%	intergenic (+172/‑261)	lysQ → / → nadA	tRNA‑Lys/quinolinate synthase, subunit A
RA	781,826	A→T	5.9%	intergenic (+174/‑259)	lysQ → / → nadA	tRNA‑Lys/quinolinate synthase, subunit A
RA	781,828	A→G	5.9%	intergenic (+176/‑257)	lysQ → / → nadA	tRNA‑Lys/quinolinate synthase, subunit A
RA	786,613	C→A	9.7%	A327A (GCC→GCA)	aroG →	3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, phenylalanine repressible
RA	786,614	T→G	9.2%	C328G (TGC→GGC)	aroG →	3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, phenylalanine repressible
RA	788,385	G→T	6.5%	T151T (ACC→ACA) ‡	galM ←	aldose 1‑epimerase; type‑1 mutarotase; galactose mutarotase
RA	788,387	T→A	6.2%	T151S (ACC→TCC) ‡	galM ←	aldose 1‑epimerase; type‑1 mutarotase; galactose mutarotase
RA	788,389	A→C	5.4%	L150R (CTG→CGG)	galM ←	aldose 1‑epimerase; type‑1 mutarotase; galactose mutarotase
RA	813,570:1	+T	7.8%	coding (45/2022 nt)	uvrB →	exision nuclease of nucleotide excision repair, DNA damage recognition component
RA	813,575	Δ1 bp	7.5%	coding (50/2022 nt)	uvrB →	exision nuclease of nucleotide excision repair, DNA damage recognition component
RA	845,578	T→C	5.2%	intergenic (‑98/+163)	ybiO ← / ← glnQ	mechanosensitive channel protein, intermediate conductance/glutamine transporter subunit
RA	847,203	T→C	5.5%	intergenic (‑84/+55)	glnP ← / ← glnH	glutamine transporter subunit/glutamine transporter subunit
RA	847,213	A→T	10.7%	intergenic (‑94/+45)	glnP ← / ← glnH	glutamine transporter subunit/glutamine transporter subunit
RA	847,214	T→A	10.8%	intergenic (‑95/+44)	glnP ← / ← glnH	glutamine transporter subunit/glutamine transporter subunit
RA	847,215	A→T	11.6%	intergenic (‑96/+43)	glnP ← / ← glnH	glutamine transporter subunit/glutamine transporter subunit
RA	857,576	T→C	9.4%	intergenic (+21/+220)	ybiT → / ← ybiU	ABC‑F family putative regulatory ATPase/DUF1479 family protein
RA	857,578	C→G	10.1%	intergenic (+23/+218)	ybiT → / ← ybiU	ABC‑F family putative regulatory ATPase/DUF1479 family protein
RA	857,580	G→A	10.1%	intergenic (+25/+216)	ybiT → / ← ybiU	ABC‑F family putative regulatory ATPase/DUF1479 family protein
RA	860,157	C→T	6.0%	intergenic (‑129/+17)	ybiV ← / ← ybiW	sugar phosphatase; fructose‑1‑P/ribose‑5‑P/glucose‑6‑P phosphatase/putative pyruvate formate lyase
RA	872,840	A→G	5.4%	intergenic (+39/‑139)	gsiD → / → yliE	glutathione ABC transporter permease/putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase
RA	887,392	T→A	5.9%	intergenic (‑53/‑31)	ybjJ ← / → rcdA	putative drug efflux MFS transporter, inner membrane protein/transcriptional regulator of csgD and ybiJI; autoregulator
RA	887,393	T→A	5.9%	intergenic (‑54/‑30)	ybjJ ← / → rcdA	putative drug efflux MFS transporter, inner membrane protein/transcriptional regulator of csgD and ybiJI; autoregulator
RA	894,952	T→A	9.2%	intergenic (+56/‑39)	potF → / → potG	putrescine ABC transporter periplasmic binding protein/putrescine ABC transporter ATPase
RA	899,656	T→C	7.0%	intergenic (+11/+188)	rlmC → / ← artJ	23S rRNA m(5)U747 methyltransferase, SAM‑dependent/arginine ABC transporter periplasmic binding protein
RA	899,657	G→A	7.1%	intergenic (+12/+187)	rlmC → / ← artJ	23S rRNA m(5)U747 methyltransferase, SAM‑dependent/arginine ABC transporter periplasmic binding protein
RA	918,118	G→A	6.0%	G549D (GGT→GAT) ‡	ybjD →	putative OLD family ATP‑dependent endonuclease; DUF2813 family protein
RA	918,119	T→C	5.7%	G549G (GGT→GGC) ‡	ybjD →	putative OLD family ATP‑dependent endonuclease; DUF2813 family protein
RA	926,168	C→T	5.3%	intergenic (‑197/+57)	serW ← / ← infA	tRNA‑Ser/translation initiation factor IF‑1
RA	926,174	A→T	7.7%	intergenic (‑203/+51)	serW ← / ← infA	tRNA‑Ser/translation initiation factor IF‑1
RA	926,180	A→G	7.4%	intergenic (‑209/+45)	serW ← / ← infA	tRNA‑Ser/translation initiation factor IF‑1
RA	940,751	T→C	12.0%	intergenic (+31/‑208)	serS → / → dmsA	seryl‑tRNA synthetase/dimethyl sulfoxide reductase, anaerobic, subunit A
RA	940,754	G→A	12.2%	intergenic (+34/‑205)	serS → / → dmsA	seryl‑tRNA synthetase/dimethyl sulfoxide reductase, anaerobic, subunit A
RA	951,495	G→A	5.8%	A687V (GCT→GTT)	pflB ←	formate C‑acetyltransferase 1, anaerobic; pyruvate formate‑lyase 1
RA	951,498	A→T	5.1%	L686Q (CTG→CAG)	pflB ←	formate C‑acetyltransferase 1, anaerobic; pyruvate formate‑lyase 1
RA	951,501	T→C	5.4%	N685S (AAC→AGC)	pflB ←	formate C‑acetyltransferase 1, anaerobic; pyruvate formate‑lyase 1
RA	958,769	C→G	8.0%	intergenic (+28/‑43)	serC → / → aroA	3‑phosphoserine/phosphohydroxythreonine aminotransferase/5‑enolpyruvylshikimate‑3‑phosphate synthetase
RA	958,771	A→T	7.9%	intergenic (+30/‑41)	serC → / → aroA	3‑phosphoserine/phosphohydroxythreonine aminotransferase/5‑enolpyruvylshikimate‑3‑phosphate synthetase
RA	958,773	C→G	7.9%	intergenic (+32/‑39)	serC → / → aroA	3‑phosphoserine/phosphohydroxythreonine aminotransferase/5‑enolpyruvylshikimate‑3‑phosphate synthetase
RA	963,761	T→C	7.6%	intergenic (+93/‑67)	rpsA → / → ihfB	30S ribosomal subunit protein S1/integration host factor (IHF), DNA‑binding protein, beta subunit
RA	963,762	A→G	8.2%	intergenic (+94/‑66)	rpsA → / → ihfB	30S ribosomal subunit protein S1/integration host factor (IHF), DNA‑binding protein, beta subunit
RA	963,763	C→T	7.7%	intergenic (+95/‑65)	rpsA → / → ihfB	30S ribosomal subunit protein S1/integration host factor (IHF), DNA‑binding protein, beta subunit
RA	963,764	G→A	7.7%	intergenic (+96/‑64)	rpsA → / → ihfB	30S ribosomal subunit protein S1/integration host factor (IHF), DNA‑binding protein, beta subunit
RA	964,148	T→C	6.4%	intergenic (+36/‑172)	ihfB → / → ycaI	integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein
RA	964,150	T→A	6.5%	intergenic (+38/‑170)	ihfB → / → ycaI	integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein
RA	964,152	G→A	6.5%	intergenic (+40/‑168)	ihfB → / → ycaI	integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein
RA	976,769	G→A	6.1%	L148L (CTG→CTA)	mukB →	chromosome condensin MukBEF, ATPase and DNA‑binding subunit
RA	987,560	G→C	11.5%	intergenic (‑578/+25)	ompF ← / ← asnS	outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
RA	987,561	G→C	10.6%	intergenic (‑579/+24)	ompF ← / ← asnS	outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
RA	1,004,746	C→A	5.5%	intergenic (+89/‑22)	ycbF → / → pyrD	putative periplasmic pilin chaperone/dihydro‑orotate oxidase, FMN‑linked
RA	1,007,813	T→C	7.8%	intergenic (‑213/‑31)	ycbX ← / → rlmL	6‑N‑hydroxylaminopurine detoxification oxidoreductase/23S rRNA m(2)G2445 and m(7)G2069 methyltransferases, SAM‑dependent
RA	1,007,816	G→A	7.0%	intergenic (‑216/‑28)	ycbX ← / → rlmL	6‑N‑hydroxylaminopurine detoxification oxidoreductase/23S rRNA m(2)G2445 and m(7)G2069 methyltransferases, SAM‑dependent
RA	1,015,912	T→A	10.6%	intergenic (+30/+40)	rmf → / ← fabA	ribosome modulation factor/beta‑hydroxydecanoyl thioester dehydrase
RA	1,018,983	A→T	14.2%	intergenic (+46/+30)	matP → / ← ompA	Ter macrodomain organizer matS‑binding protein/outer membrane protein A (3a;II*;G;d)
RA	1,018,986	A→T	14.2%	intergenic (+49/+27)	matP → / ← ompA	Ter macrodomain organizer matS‑binding protein/outer membrane protein A (3a;II*;G;d)
RA	1,036,227	T→A	7.0%	L153H (CTT→CAT) ‡	hyaD →	hydrogenase 1 maturation protease
RA	1,036,228	T→A	7.4%	L153L (CTT→CTA) ‡	hyaD →	hydrogenase 1 maturation protease
RA	1,041,937	T→G	14.5%	intergenic (+22/+93)	appA → / ← etk	phosphoanhydride phosphorylase/tyrosine‑protein kinase, role in O‑antigen capsule formation
RA	1,041,940	C→A	14.7%	intergenic (+25/+90)	appA → / ← etk	phosphoanhydride phosphorylase/tyrosine‑protein kinase, role in O‑antigen capsule formation
RA	1,052,257	C→T	8.5%	intergenic (+17/+32)	gnsA → / ← yccM	putative phosphatidylethanolamine synthesis regulator/putative 4Fe‑4S membrane protein
RA	1,052,260	T→C	7.5%	intergenic (+20/+29)	gnsA → / ← yccM	putative phosphatidylethanolamine synthesis regulator/putative 4Fe‑4S membrane protein
RA	1,052,261	G→A	7.3%	intergenic (+21/+28)	gnsA → / ← yccM	putative phosphatidylethanolamine synthesis regulator/putative 4Fe‑4S membrane protein
RA	1,052,264	A→G	7.3%	intergenic (+24/+25)	gnsA → / ← yccM	putative phosphatidylethanolamine synthesis regulator/putative 4Fe‑4S membrane protein
RA	1,075,515	G→T	7.4%	A1123E (GCG→GAG)	putA ←	fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase
RA	1,075,518	A→C	7.4%	L1122R (CTC→CGC)	putA ←	fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase
RA	1,100,789	G→T	12.8%	intergenic (+2/+62)	ycdZ → / ← csgG	DUF1097 family inner membrane protein/curli production assembly/transport outer membrane lipoprotein
RA	1,100,791	G→C	12.8%	intergenic (+4/+60)	ycdZ → / ← csgG	DUF1097 family inner membrane protein/curli production assembly/transport outer membrane lipoprotein
RA	1,100,793	A→C	12.5%	intergenic (+6/+58)	ycdZ → / ← csgG	DUF1097 family inner membrane protein/curli production assembly/transport outer membrane lipoprotein
RA	1,113,544	G→A	6.3%	intergenic (+138/‑35)	opgH → / → yceK	OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist/outer membrane integrity lipoprotein
RA	1,113,546	T→A	6.0%	intergenic (+140/‑33)	opgH → / → yceK	OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist/outer membrane integrity lipoprotein
RA	1,113,548	T→C	6.2%	intergenic (+142/‑31)	opgH → / → yceK	OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist/outer membrane integrity lipoprotein
RA	1,141,148	C→T	6.3%	intergenic (+162/+34)	flgL → / ← rne	flagellar hook‑filament junction protein/endoribonuclease; RNA‑binding protein;RNA degradosome binding protein
RA	1,141,150	G→A	6.2%	intergenic (+164/+32)	flgL → / ← rne	flagellar hook‑filament junction protein/endoribonuclease; RNA‑binding protein;RNA degradosome binding protein
RA	1,141,151	T→C	6.1%	intergenic (+165/+31)	flgL → / ← rne	flagellar hook‑filament junction protein/endoribonuclease; RNA‑binding protein;RNA degradosome binding protein
RA	1,141,153	A→G	6.2%	intergenic (+167/+29)	flgL → / ← rne	flagellar hook‑filament junction protein/endoribonuclease; RNA‑binding protein;RNA degradosome binding protein
RA	1,147,548	T→G	6.3%	intergenic (+8/‑73)	rpmF → / → plsX	50S ribosomal subunit protein L32/putative phosphate acyltransferase
RA	1,147,549	C→A	6.4%	intergenic (+9/‑72)	rpmF → / → plsX	50S ribosomal subunit protein L32/putative phosphate acyltransferase
RA	1,147,980	G→T	9.1%	K120N (AAG→AAT)	plsX →	putative phosphate acyltransferase
RA	1,147,986	G→C	9.4%	L122L (CTG→CTC)	plsX →	putative phosphate acyltransferase
RA	1,147,987	G→C	9.4%	E123Q (GAG→CAG)	plsX →	putative phosphate acyltransferase
RA	1,147,993	A→C	10.6%	I125L (ATT→CTT)	plsX →	putative phosphate acyltransferase
RA	1,151,873	T→A	7.4%	intergenic (+22/‑66)	acpP → / → fabF	acyl carrier protein (ACP)/3‑oxoacyl‑[acyl‑carrier‑protein] synthase II
RA	1,151,874	T→A	7.2%	intergenic (+23/‑65)	acpP → / → fabF	acyl carrier protein (ACP)/3‑oxoacyl‑[acyl‑carrier‑protein] synthase II
RA	1,153,208	T→C	7.9%	intergenic (+28/‑92)	fabF → / → pabC	3‑oxoacyl‑[acyl‑carrier‑protein] synthase II/4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex
RA	1,153,213	T→A	7.4%	intergenic (+33/‑87)	fabF → / → pabC	3‑oxoacyl‑[acyl‑carrier‑protein] synthase II/4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex
RA	1,153,214	T→A	7.5%	intergenic (+34/‑86)	fabF → / → pabC	3‑oxoacyl‑[acyl‑carrier‑protein] synthase II/4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex
RA	1,153,219	G→A	8.7%	intergenic (+39/‑81)	fabF → / → pabC	3‑oxoacyl‑[acyl‑carrier‑protein] synthase II/4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex
RA	1,159,335	G→T	8.5%	intergenic (+33/+27)	ptsG → / ← fhuE	fused glucose‑specific PTS enzymes: IIB component/IIC component/ferric‑rhodotorulic acid outer membrane transporter
RA	1,159,336	A→C	8.6%	intergenic (+34/+26)	ptsG → / ← fhuE	fused glucose‑specific PTS enzymes: IIB component/IIC component/ferric‑rhodotorulic acid outer membrane transporter
RA	1,170,272	G→C	7.3%	P35A (CCA→GCA)	ldtC ←	L,D‑transpeptidase linking Lpp to murein
RA	1,170,275	G→C	7.3%	P34A (CCG→GCG)	ldtC ←	L,D‑transpeptidase linking Lpp to murein
RA	1,170,282	C→G	8.5%	W31C (TGG→TGC)	ldtC ←	L,D‑transpeptidase linking Lpp to murein
RA	1,174,077	G→A	10.1%	intergenic (‑113/+15)	mfd ← / ← ycfT	transcription‑repair coupling factor/inner membrane protein
RA	1,174,080	T→C	10.1%	intergenic (‑116/+12)	mfd ← / ← ycfT	transcription‑repair coupling factor/inner membrane protein
RA	1,177,646	T→G	8.3%	N109K (AAT→AAG)	lolE →	lipoprotein‑releasing system transmembrane protein
RA	1,177,647	C→A	8.5%	L110I (CTT→ATT)	lolE →	lipoprotein‑releasing system transmembrane protein
RA	1,178,848	A→T	5.1%	K86* (AAA→TAA) ‡	nagK →	N‑acetyl‑D‑glucosamine kinase
RA	1,178,849	A→T	5.3%	K86I (AAA→ATA) ‡	nagK →	N‑acetyl‑D‑glucosamine kinase
RA	1,182,771	G→C	7.4%	A20G (GCC→GGC)	potD ←	spermidine/putrescine ABC transporter periplasmic binding protein
RA	1,182,778	T→C	6.0%	M18V (ATG→GTG)	potD ←	spermidine/putrescine ABC transporter periplasmic binding protein
RA	1,187,090	G→C	11.5%	intergenic (+20/+29)	pepT → / ← roxA	peptidase T/50S ribosomal protein L16 arginine hydroxylase; 2‑oxoglutarate oxygenase
RA	1,187,091	T→A	9.4%	intergenic (+21/+28)	pepT → / ← roxA	peptidase T/50S ribosomal protein L16 arginine hydroxylase; 2‑oxoglutarate oxygenase
RA	1,187,092	G→C	10.3%	intergenic (+22/+27)	pepT → / ← roxA	peptidase T/50S ribosomal protein L16 arginine hydroxylase; 2‑oxoglutarate oxygenase
RA	1,194,657	Δ1 bp	5.0%	coding (295/654 nt)	rluE ←	23S rRNA pseudouridine(2457) synthase
RA	1,196,803	A→C	7.3%	intergenic (+430/+64)	icd → / ← ymfD	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase/e14 prophage; putative SAM‑dependent methyltransferase
RA	1,196,804	G→T	7.3%	intergenic (+431/+63)	icd → / ← ymfD	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase/e14 prophage; putative SAM‑dependent methyltransferase
RA	1,202,957	G→T	5.1%	intergenic (‑24/‑67)	cohE ← / → croE	e14 prophage; repressor protein phage e14/e14 prophage; putative DNA‑binding transcriptional regulator
RA	1,202,959	T→A	5.1%	intergenic (‑26/‑65)	cohE ← / → croE	e14 prophage; repressor protein phage e14/e14 prophage; putative DNA‑binding transcriptional regulator
RA	1,202,961	A→C	5.1%	intergenic (‑28/‑63)	cohE ← / → croE	e14 prophage; repressor protein phage e14/e14 prophage; putative DNA‑binding transcriptional regulator
RA	1,211,610	A→G	9.2%	intergenic (+33/+70)	icdC → / ← iraM	pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion/RpoS stabilzer during Mg starvation, anti‑RssB factor
RA	1,211,612	A→T	9.3%	intergenic (+35/+68)	icdC → / ← iraM	pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion/RpoS stabilzer during Mg starvation, anti‑RssB factor
RA	1,211,614	C→T	10.0%	intergenic (+37/+66)	icdC → / ← iraM	pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion/RpoS stabilzer during Mg starvation, anti‑RssB factor
JC JC	1,220,954	IS5 (–) +4 bp	12.3%	pseudogene (1354‑1357/2574 nt)	ycgH →	pseudogene; putative ATP‑binding component of a transport system
RA	1,273,229	A→T	5.1%	intergenic (+27/+17)	chaC → / ← ychN	cation transport regulator/putative sulfur relay protein
RA	1,285,190	T→A	9.0%	L18I (TTA→ATA)	narJ →	molybdenum‑cofactor‑assembly chaperone delta subunit of nitrate reductase 1
RA	1,285,193	T→A	9.2%	W19R (TGG→AGG)	narJ →	molybdenum‑cofactor‑assembly chaperone delta subunit of nitrate reductase 1
JC JC	1,293,196	IS5 (+) +4 bp	14.3%	intergenic (‑274/‑328)	hns ← / → tdk	global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase
RA	1,306,787	G→A	5.4%	intergenic (+19/+34)	oppF → / ← yciU	oligopeptide ABC transporter ATPase/UPF0263 family protein
RA	1,311,830	A→G	8.6%	intergenic (+22/+18)	tonB → / ← yciA	membrane spanning protein in TonB‑ExbB‑ExbD transport complex/acyl‑CoA esterase
RA	1,311,831	C→T	8.6%	intergenic (+23/+17)	tonB → / ← yciA	membrane spanning protein in TonB‑ExbB‑ExbD transport complex/acyl‑CoA esterase
RA	1,324,837	A→C	11.6%	Y31S (TAT→TCT) ‡	yciQ →	enhancer of membrane protein expression; putative inner membrane protein
RA	1,324,838	T→A	11.6%	Y31* (TAT→TAA) ‡	yciQ →	enhancer of membrane protein expression; putative inner membrane protein
RA	1,324,839	G→T	12.3%	E32* (GAA→TAA)	yciQ →	enhancer of membrane protein expression; putative inner membrane protein
RA	1,327,213	C→T	7.6%	T121I (ACC→ATC)	rluB →	23S rRNA pseudouridine(2605) synthase
RA	1,327,216	A→G	7.5%	D122G (GAT→GGT)	rluB →	23S rRNA pseudouridine(2605) synthase
RA	1,330,396:1	+T	9.0%	intergenic (+15/+21)	sohB → / ← yciN	inner membrane protein, S49 peptidase family protein/DUF2498 protein YciN
RA	1,330,399	A→T	9.1%	intergenic (+18/+18)	sohB → / ← yciN	inner membrane protein, S49 peptidase family protein/DUF2498 protein YciN
RA	1,330,402	Δ1 bp	9.2%	intergenic (+21/+15)	sohB → / ← yciN	inner membrane protein, S49 peptidase family protein/DUF2498 protein YciN
RA	1,335,681	T→C	6.3%	intergenic (+223/‑150)	yciX → / → acnA	uncharacterized protein/aconitate hydratase 1; aconitase A
RA	1,335,684	G→A	6.5%	intergenic (+226/‑147)	yciX → / → acnA	uncharacterized protein/aconitate hydratase 1; aconitase A
RA	1,344,033	A→G	5.5%	L105P (CTG→CCG)	yciT ←	global regulator of transcription; DeoR family
RA	1,351,228	G→C	7.4%	intergenic (‑189/+179)	fabI ← / ← ycjD	enoyl‑[acyl‑carrier‑protein] reductase, NADH‑dependent/DUF559 family endonuclease‑related protein
RA	1,351,229	A→T	6.3%	intergenic (‑190/+178)	fabI ← / ← ycjD	enoyl‑[acyl‑carrier‑protein] reductase, NADH‑dependent/DUF559 family endonuclease‑related protein
RA	1,367,510	T→G	10.6%	S135R (AGC→CGC)	pspF ←	psp operon transcriptional activator
RA	1,367,513	C→A	10.5%	G134C (GGC→TGC)	pspF ←	psp operon transcriptional activator
RA	1,381,915	G→T	6.0%	intergenic (+13/‑32)	ycjV → / → ompG	pseudogene; putative ATP‑binding component of a transport system/outer membrane porin G
RA	1,381,918	A→C	5.8%	intergenic (+16/‑29)	ycjV → / → ompG	pseudogene; putative ATP‑binding component of a transport system/outer membrane porin G
RA	1,386,750	C→G	6.5%	L11V (CTC→GTC)	tyrR →	aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase
RA	1,388,283	C→T	9.8%	intergenic (+22/+22)	tyrR → / ← tpx	aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase
RA	1,388,284	A→T	9.9%	intergenic (+23/+21)	tyrR → / ← tpx	aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase
RA	1,388,285	A→G	10.1%	intergenic (+24/+20)	tyrR → / ← tpx	aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase
RA	1,426,178	A→T	5.5%	intergenic (+96/‑276)	ydaY → / → tmpR	pseudogene, Rac prophage;Phage or Prophage Related/Rac prophage; pseudogene, tail protein family;Phage or Prophage Related; putative alpha helix protein
RA	1,449,050	T→A	9.4%	intergenic (+32/+26)	feaB → / ← tynA	phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring
RA	1,462,028	G→A	6.3%	G379D (GGT→GAT) ‡	paaJ →	3‑oxoadipyl‑CoA/3‑oxo‑5,6‑dehydrosuberyl‑CoA thiolase
RA	1,462,029	T→C	6.2%	G379G (GGT→GGC) ‡	paaJ →	3‑oxoadipyl‑CoA/3‑oxo‑5,6‑dehydrosuberyl‑CoA thiolase
RA	1,493,194	G→C	5.8%	S242T (AGT→ACT)	trg →	methyl‑accepting chemotaxis protein III, ribose and galactose sensor receptor
RA	1,498,892	A→T	9.0%	intergenic (+17/‑46)	ydcH → / → rimL	DUF465 family protein/ribosomal‑protein‑L7/L12‑serine acetyltransferase
RA	1,498,894	C→G	9.0%	intergenic (+19/‑44)	ydcH → / → rimL	DUF465 family protein/ribosomal‑protein‑L7/L12‑serine acetyltransferase
RA	1,498,896	A→T	9.0%	intergenic (+21/‑42)	ydcH → / → rimL	DUF465 family protein/ribosomal‑protein‑L7/L12‑serine acetyltransferase
RA	1,507,501	A→C	5.9%	I241L (ATT→CTT)	ydcP →	putative peptidase
RA	1,517,481	C→G	9.1%	R31R (CGC→CGG)	ydcX →	DUF2566 family protein
RA	1,517,484	C→G	9.0%	I32M (ATC→ATG)	ydcX →	DUF2566 family protein
RA	1,528,193	G→C	6.2%	pseudogene (292/2037 nt)	rhsE →	pseudogene, Rhs family
RA	1,528,194	A→T	6.2%	pseudogene (293/2037 nt)	rhsE →	pseudogene, Rhs family
RA	1,528,195	G→C	6.1%	pseudogene (294/2037 nt)	rhsE →	pseudogene, Rhs family
RA	1,541,077	G→C	10.4%	A505G (GCC→GGC)	narZ ←	nitrate reductase 2 (NRZ), alpha subunit
RA	1,552,377	G→A	5.8%	intergenic (+386/+21)	fdnI → / ← yddM	formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator
RA	1,552,388	T→C	5.8%	intergenic (+397/+10)	fdnI → / ← yddM	formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator
RA	1,557,194	A→C	5.5%	L282R (CTG→CGG)	ddpF ←	D,D‑dipeptide ABC transporter ATPase
RA	1,557,197	G→T	5.7%	P281Q (CCG→CAG)	ddpF ←	D,D‑dipeptide ABC transporter ATPase
RA	1,572,928	C→G	5.3%	A759P (GCA→CCA)	pqqL ←	putative periplasmic M16 family zinc metalloendopeptidase
RA	1,585,149	Δ1 bp	5.3%	coding (1338/2280 nt)	ydeP ←	putative oxidoreductase
RA	1,585,156:1	+C	5.4%	coding (1331/2280 nt)	ydeP ←	putative oxidoreductase
RA	1,597,272	T→A	5.0%	pseudogene (716/3861 nt)	yneO ←	pseudogene, AidA homolog
RA	1,603,724	A→C	7.3%	T236P (ACC→CCC)	lsrC →	autoinducer 2 import system permease protein
RA	1,603,735	G→T	7.4%	G239G (GGG→GGT)	lsrC →	autoinducer 2 import system permease protein
RA	1,608,704	A→G	14.0%	S107P (TCG→CCG)	yneE ←	bestrophin family putative inner membrane protein
RA	1,608,707	C→T	14.2%	D106N (GAT→AAT)	yneE ←	bestrophin family putative inner membrane protein
RA	1,620,224	C→G	7.9%	intergenic (+17/+14)	marB → / ← eamA	periplasmic mar operon regulator/cysteine and O‑acetyl‑L‑serine efflux system
RA	1,620,227	C→G	8.3%	intergenic (+20/+11)	marB → / ← eamA	periplasmic mar operon regulator/cysteine and O‑acetyl‑L‑serine efflux system
RA	1,642,370	C→G	10.0%	intergenic (+303/+119)	cspF → / ← quuQ	Qin prophage; cold shock protein/Qin prophage; putative antitermination protein Q
RA	1,642,373	C→G	10.0%	intergenic (+306/+116)	cspF → / ← quuQ	Qin prophage; cold shock protein/Qin prophage; putative antitermination protein Q
RA	1,650,147	G→A	5.8%	pseudogene (70/765 nt)	ydfE →	Qin prophage; pseudogene;Phage or Prophage Related
RA	1,666,466	T→G	5.9%	Y384* (TAT→TAG)	clcB →	H(+)/Cl(‑) exchange transporter
RA	1,666,468	A→T	5.9%	Q385L (CAG→CTG)	clcB →	H(+)/Cl(‑) exchange transporter
RA	1,666,470	C→A	5.7%	L386I (CTA→ATA)	clcB →	H(+)/Cl(‑) exchange transporter
RA	1,679,398	T→A	9.0%	intergenic (+27/‑159)	ydgH → / → ydgI	DUF1471 family periplasmic protein/putative arginine/ornithine antiporter transporter
RA	1,679,400	G→C	9.2%	intergenic (+29/‑157)	ydgH → / → ydgI	DUF1471 family periplasmic protein/putative arginine/ornithine antiporter transporter
RA	1,679,402	T→A	9.3%	intergenic (+31/‑155)	ydgH → / → ydgI	DUF1471 family periplasmic protein/putative arginine/ornithine antiporter transporter
RA	1,681,614	G→A	5.5%	V213V (GTG→GTA)	folM →	dihydromonapterin reductase, NADPH‑dependent; dihydrofolate reductase isozyme
RA	1,681,622	T→A	7.1%	L216Q (CTG→CAG)	folM →	dihydromonapterin reductase, NADPH‑dependent; dihydrofolate reductase isozyme
RA	1,684,016	A→G	5.9%	S379G (AGC→GGC)	rstB →	sensory histidine kinase of RstAB two‑component system
RA	1,684,019	C→T	5.9%	R380W (CGG→TGG)	rstB →	sensory histidine kinase of RstAB two‑component system
RA	1,685,527	A→G	100%	G354G (GGT→GGC)	fumC ←	fumarate hydratase (fumarase C),aerobic Class II
RA	1,703,251	A→T	10.4%	intergenic (+17/+17)	add → / ← ydgJ	adenosine deaminase/putative oxidoreductase
RA	1,703,252	A→T	10.4%	intergenic (+18/+16)	add → / ← ydgJ	adenosine deaminase/putative oxidoreductase
RA	1,744,295	T→A	5.7%	F280Y (TTT→TAT)	mdtK →	multidrug efflux system transporter
RA	1,757,571	A→T	5.8%	M51L (ATG→TTG)	lpp →	murein lipoprotein
RA	1,764,687	T→C	9.3%	intergenic (‑301/+26)	sufA ← / ← rydB	Fe‑S cluster assembly protein/novel sRNA, function unknown
RA	1,764,693	C→T	6.7%	intergenic (‑307/+20)	sufA ← / ← rydB	Fe‑S cluster assembly protein/novel sRNA, function unknown
RA	1,764,694	G→C	6.8%	intergenic (‑308/+19)	sufA ← / ← rydB	Fe‑S cluster assembly protein/novel sRNA, function unknown
RA	1,764,695	A→G	6.8%	intergenic (‑309/+18)	sufA ← / ← rydB	Fe‑S cluster assembly protein/novel sRNA, function unknown
RA	1,764,701	G→A	8.9%	intergenic (‑315/+12)	sufA ← / ← rydB	Fe‑S cluster assembly protein/novel sRNA, function unknown
RA	1,770,203	T→A	11.9%	intergenic (+17/‑169)	ydiK → / → rprA	UPF0118 family inner membrane protein/sRNA antisense activator for RpoS translation, Hfq‑dependent
RA	1,770,204	C→G	11.9%	intergenic (+18/‑168)	ydiK → / → rprA	UPF0118 family inner membrane protein/sRNA antisense activator for RpoS translation, Hfq‑dependent
RA	1,770,205	T→A	11.9%	intergenic (+19/‑167)	ydiK → / → rprA	UPF0118 family inner membrane protein/sRNA antisense activator for RpoS translation, Hfq‑dependent
RA	1,770,387	C→T	5.2%	noncoding (16/106 nt)	rprA →	sRNA antisense activator for RpoS translation, Hfq‑dependent
RA	1,770,390	A→G	5.2%	noncoding (19/106 nt)	rprA →	sRNA antisense activator for RpoS translation, Hfq‑dependent
RA	1,795,227	A→T	9.9%	intergenic (‑75/+26)	btuC ← / ← ihfA	vitamin B12 ABC transporter permease/integration host factor (IHF), DNA‑binding protein, alpha subunit
RA	1,795,228	G→C	9.9%	intergenic (‑76/+25)	btuC ← / ← ihfA	vitamin B12 ABC transporter permease/integration host factor (IHF), DNA‑binding protein, alpha subunit
RA	1,795,229	A→T	9.7%	intergenic (‑77/+24)	btuC ← / ← ihfA	vitamin B12 ABC transporter permease/integration host factor (IHF), DNA‑binding protein, alpha subunit
RA	1,797,388	G→T	6.8%	P186Q (CCG→CAG)	pheT ←	phenylalanine tRNA synthetase, beta subunit
RA	1,797,391	A→C	6.6%	L185R (CTG→CGG)	pheT ←	phenylalanine tRNA synthetase, beta subunit
RA	1,799,370	Δ1 bp	8.9%	intergenic (‑100/+23)	pheM ← / ← rplT	phenylalanyl‑tRNA synthetase operon leader peptide/50S ribosomal subunit protein L20
RA	1,799,374:1	+T	8.8%	intergenic (‑104/+19)	pheM ← / ← rplT	phenylalanyl‑tRNA synthetase operon leader peptide/50S ribosomal subunit protein L20
RA	1,836,904	A→G	10.4%	S278G (AGC→GGC) ‡	ynjB →	putative ABC transporter periplasmic binding protein
RA	1,836,905	G→C	10.8%	S278T (AGC→ACC) ‡	ynjB →	putative ABC transporter periplasmic binding protein
RA	1,836,906	C→T	10.8%	S278S (AGC→AGT) ‡	ynjB →	putative ABC transporter periplasmic binding protein
RA	1,856,333	T→G	7.2%	E199A (GAG→GCG) ‡	ydjH ←	putative kinase
RA	1,856,334	C→A	7.4%	E199* (GAG→TAG) ‡	ydjH ←	putative kinase
RA	1,863,800	T→C	10.2%	intergenic (+34/‑50)	gapA → / → yeaD	glyceraldehyde‑3‑phosphate dehydrogenase A/D‑hexose‑6‑phosphate epimerase‑like protein
RA	1,863,801	T→G	10.2%	intergenic (+35/‑49)	gapA → / → yeaD	glyceraldehyde‑3‑phosphate dehydrogenase A/D‑hexose‑6‑phosphate epimerase‑like protein
RA	1,863,802	C→A	10.5%	intergenic (+36/‑48)	gapA → / → yeaD	glyceraldehyde‑3‑phosphate dehydrogenase A/D‑hexose‑6‑phosphate epimerase‑like protein
RA	1,863,803	G→A	10.4%	intergenic (+37/‑47)	gapA → / → yeaD	glyceraldehyde‑3‑phosphate dehydrogenase A/D‑hexose‑6‑phosphate epimerase‑like protein
RA	1,865,682	G→C	11.6%	intergenic (‑46/+44)	yeaE ← / ← mipA	aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent/scaffolding protein for murein synthesizing machinery
RA	1,868,865:1	+G	5.9%	intergenic (+23/‑90)	yeaG → / → yeaH	protein kinase, endogenous substrate unidentified; autokinase/UPF0229 family protein
RA	1,883,027	C→G	8.9%	intergenic (+30/‑161)	dmlA → / → yeaV	D‑malate oxidase, NAD‑dependent; putative tartrate dehydrogenase/putative transporter
RA	1,944,240	T→G	5.6%	intergenic (+41/+106)	znuB → / ← ruvB	zinc ABC transporter permease/ATP‑dependent DNA helicase, component of RuvABC resolvasome
RA	1,944,241	T→C	5.6%	intergenic (+42/+105)	znuB → / ← ruvB	zinc ABC transporter permease/ATP‑dependent DNA helicase, component of RuvABC resolvasome
RA	1,950,926	A→G	5.9%	E32G (GAG→GGG)	yecD →	isochorismatase family protein
RA	1,954,443	G→T	6.5%	intergenic (+30/+135)	cmoB → / ← torZ	tRNA (cmo5U34)‑carboxymethyltransferase, carboxy‑SAM‑dependent/trimethylamine N‑oxide reductase system III, catalytic subunit
RA	1,954,444	A→C	5.7%	intergenic (+31/+134)	cmoB → / ← torZ	tRNA (cmo5U34)‑carboxymethyltransferase, carboxy‑SAM‑dependent/trimethylamine N‑oxide reductase system III, catalytic subunit
RA	1,965,904	A→G	5.0%	I96I (ATT→ATC)	flhB ←	flagellin export apparatus, substrate specificity protein
RA	1,977,223:1	+A	8.0%	intergenic (‑84/+43)	motA ← / ← flhC	proton conductor component of flagella motor/flagellar class II regulon transcriptional activator, with FlhD
RA	1,977,227	T→A	8.0%	intergenic (‑88/+39)	motA ← / ← flhC	proton conductor component of flagella motor/flagellar class II regulon transcriptional activator, with FlhD
RA	1,977,230	Δ1 bp	8.0%	intergenic (‑91/+36)	motA ← / ← flhC	proton conductor component of flagella motor/flagellar class II regulon transcriptional activator, with FlhD
MC JC	1,978,503	Δ776 bp	100%		insB1–insA	insB1, insA
RA	1,981,814	T→A	5.7%	T192S (ACG→TCG)	otsB ←	trehalose‑6‑phosphate phosphatase, biosynthetic
RA	1,981,815	T→A	5.7%	R191R (CGA→CGT)	otsB ←	trehalose‑6‑phosphate phosphatase, biosynthetic
RA	1,982,500	T→C	5.0%	intergenic (‑113/+54)	otsB ← / ← araH	trehalose‑6‑phosphate phosphatase, biosynthetic/L‑arabinose ABC transporter permease
RA	1,982,501	T→C	5.1%	intergenic (‑114/+53)	otsB ← / ← araH	trehalose‑6‑phosphate phosphatase, biosynthetic/L‑arabinose ABC transporter permease
RA	1,982,504	G→A	5.1%	intergenic (‑117/+50)	otsB ← / ← araH	trehalose‑6‑phosphate phosphatase, biosynthetic/L‑arabinose ABC transporter permease
RA	1,985,112	C→G	20.0%	intergenic (‑43/+27)	araG ← / ← araF	L‑arabinose ABC transporter ATPase/L‑arabinose ABC transporter periplasmic binding protein
RA	1,986,356	A→T	5.8%	intergenic (‑228/‑569)	araF ← / → ftnB	L‑arabinose ABC transporter periplasmic binding protein/ferritin B, putative ferrous iron reservoir
RA	1,998,052	C→G	7.7%	R143P (CGT→CCT)	yecS ←	ABC family putative inner membrane permease
RA	1,998,056	C→G	7.9%	A142P (GCG→CCG)	yecS ←	ABC family putative inner membrane permease
RA	1,998,060	C→G	7.7%	Q140H (CAG→CAC)	yecS ←	ABC family putative inner membrane permease
RA	2,009,731	A→G	6.8%	intergenic (+19/‑90)	yedF → / → yedK	putative TusA family sulfurtransferase/DUF159 family protein
RA	2,009,732	C→G	6.9%	intergenic (+20/‑89)	yedF → / → yedK	putative TusA family sulfurtransferase/DUF159 family protein
RA	2,009,733	C→T	6.9%	intergenic (+21/‑88)	yedF → / → yedK	putative TusA family sulfurtransferase/DUF159 family protein
RA	2,025,578	G→A	6.1%	S23N (AGT→AAT) ‡	yedP →	putative mannosyl‑3‑phosphoglycerate phosphatase
RA	2,025,579	T→C	6.1%	S23S (AGT→AGC) ‡	yedP →	putative mannosyl‑3‑phosphoglycerate phosphatase
RA	2,028,158	G→C	11.1%	intergenic (‑141/+30)	yedQ ← / ← yodC	putative membrane‑anchored diguanylate cyclase/uncharacterized protein
RA	2,028,159	T→A	11.2%	intergenic (‑142/+29)	yedQ ← / ← yodC	putative membrane‑anchored diguanylate cyclase/uncharacterized protein
RA	2,028,160	G→C	11.0%	intergenic (‑143/+28)	yedQ ← / ← yodC	putative membrane‑anchored diguanylate cyclase/uncharacterized protein
RA	2,032,336	G→C	7.8%	intergenic (‑19/+48)	dcm ← / ← yedJ	DNA cytosine methyltransferase/putative HD superfamily phosphohydrolase
RA	2,081,057	A→G	5.1%	V69A (GTG→GCG)	sbmC ←	DNA gyrase inhibitor
RA	2,081,688	A→T	9.8%	I287N (ATT→AAT)	dacD ←	D‑alanyl‑D‑alanine carboxypeptidase; penicillin‑binding protein 6b
RA	2,090,122	A→G	7.8%	intergenic (+76/‑70)	hisL → / → hisG	his operon leader peptide/ATP phosphoribosyltransferase
RA	2,090,124	C→G	8.0%	intergenic (+78/‑68)	hisL → / → hisG	his operon leader peptide/ATP phosphoribosyltransferase
RA	2,090,126	C→T	8.1%	intergenic (+80/‑66)	hisL → / → hisG	his operon leader peptide/ATP phosphoribosyltransferase
RA	2,093,969	T→A	5.8%	Y168N (TAC→AAC)	hisB →	histidinol‑phosphatase and imidazoleglycerol‑phosphate dehydratase
RA	2,093,973	C→G	5.8%	A169G (GCT→GGT)	hisB →	histidinol‑phosphatase and imidazoleglycerol‑phosphate dehydratase
RA	2,100,669	G→T	5.0%	A200A (GCC→GCA)	gnd ←	6‑phosphogluconate dehydrogenase, decarboxylating
RA	2,121,583	Δ1 bp	8.3%	intergenic (‑29/+26)	wcaJ ← / ← cpsG	colanic biosynthesis UDP‑glucose lipid carrier transferase/phosphomannomutase
RA	2,121,586	G→C	8.3%	intergenic (‑32/+23)	wcaJ ← / ← cpsG	colanic biosynthesis UDP‑glucose lipid carrier transferase/phosphomannomutase
RA	2,121,588:1	+C	8.7%	intergenic (‑34/+21)	wcaJ ← / ← cpsG	colanic biosynthesis UDP‑glucose lipid carrier transferase/phosphomannomutase
RA	2,145,313	C→A	100%	S683Y (TCC→TAC)	yegE →	putative diguanylate cyclase
RA	2,169,657	G→A	13.9%	intergenic (+46/+36)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,169,658	C→A	13.8%	intergenic (+47/+35)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,169,664	A→T	16.4%	intergenic (+53/+29)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,169,665	A→T	17.8%	intergenic (+54/+28)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,169,671	T→G	14.7%	intergenic (+60/+22)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,169,672	T→C	14.7%	intergenic (+61/+21)	yegS → / ← gatR	phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
RA	2,172,350	A→T	6.1%	L175Q (CTG→CAG)	gatD ←	galactitol‑1‑phosphate dehydrogenase, Zn‑dependent and NAD(P)‑binding
RA	2,172,353	A→T	6.1%	L174Q (CTG→CAG)	gatD ←	galactitol‑1‑phosphate dehydrogenase, Zn‑dependent and NAD(P)‑binding
RA	2,173,361	Δ2 bp	100%	pseudogene (1‑2/442 nt)	gatC ←	pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC
RA	2,177,345	A→G	6.8%	intergenic (‑141/+167)	gatY ← / ← fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
RA	2,187,314	C→G	7.4%	intergenic (+16/+66)	rcnB → / ← yehA	periplasmic modulator of Ni and Co efflux/putative fimbrial‑like adhesin protein
RA	2,247,030	G→A	5.8%	intergenic (‑261/+33)	cirA ← / ← lysP	colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter/lysine transporter
RA	2,247,031	G→A	6.1%	intergenic (‑262/+32)	cirA ← / ← lysP	colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter/lysine transporter
RA	2,247,032	T→C	6.2%	intergenic (‑263/+31)	cirA ← / ← lysP	colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter/lysine transporter
RA	2,247,033	T→C	6.4%	intergenic (‑264/+30)	cirA ← / ← lysP	colicin IA outer membrane receptor and translocator; ferric iron‑catecholate transporter/lysine transporter
RA	2,270,022	T→A	6.9%	I15N (ATT→AAT)	mepS →	murein DD‑endopeptidase, space‑maker hydrolase, mutational suppressor of prc thermosensitivity, outer membrane lipoprotein, weak murein LD‑carboxypeptidase
RA	2,279,708	A→T	7.3%	L18Q (CTG→CAG)	bcr ←	bicyclomycin/cysteine/sulfonamide efflux transporter
RA	2,279,711	A→T	7.3%	L17Q (CTG→CAG)	bcr ←	bicyclomycin/cysteine/sulfonamide efflux transporter
RA	2,282,830	T→C	9.4%	intergenic (+29/+110)	rplY → / ← yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
RA	2,282,831	C→G	9.5%	intergenic (+30/+109)	rplY → / ← yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
RA	2,282,832	C→G	10.7%	intergenic (+31/+108)	rplY → / ← yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
RA	2,282,833	G→A	9.7%	intergenic (+32/+107)	rplY → / ← yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
RA	2,302,452	A→C	8.3%	L101R (CTG→CGG)	napA ←	nitrate reductase, periplasmic, large subunit
RA	2,302,455	G→T	7.9%	P100Q (CCG→CAG)	napA ←	nitrate reductase, periplasmic, large subunit
RA	2,305,087	C→T	12.7%	intergenic (+694/+21)	eco → / ← mqo	ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain
RA	2,311,616	C→T	7.1%	intergenic (‑82/+30)	apbE ← / ← ompC	putative thiamine‑synthetic flavin transferase lipoprotein/outer membrane porin protein C
RA	2,311,619	A→G	6.5%	intergenic (‑85/+27)	apbE ← / ← ompC	putative thiamine‑synthetic flavin transferase lipoprotein/outer membrane porin protein C
RA	2,314,800	A→C	7.3%	Q438P (CAG→CCG) ‡	rcsD →	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
RA	2,314,801	G→T	7.3%	Q438H (CAG→CAT) ‡	rcsD →	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
RA	2,318,095	C→G	100%	L594F (TTG→TTC)	rcsC ←	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN
RA	2,319,581	A→G	6.0%	V99A (GTG→GCG) ‡	rcsC ←	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN
RA	2,319,582	C→G	6.8%	V99L (GTG→CTG) ‡	rcsC ←	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN
RA	2,319,585	C→G	5.9%	D98H (GAT→CAT)	rcsC ←	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN
RA	2,319,586	C→T	5.9%	A97A (GCG→GCA)	rcsC ←	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN
RA	2,331,859	A→T	6.0%	pseudogene (2544/4605 nt)	yfaS ←	pseudogene, bacterial alpha2‑macroglobulin YfaS variant family; putative membrane protein
RA	2,364,995	T→G	6.6%	intergenic (+16/+23)	nudI → / ← ais	nucleoside triphosphatase/putative LPS core heptose(II)‑phosphate phosphatase
RA	2,364,998	C→A	6.4%	intergenic (+19/+20)	nudI → / ← ais	nucleoside triphosphatase/putative LPS core heptose(II)‑phosphate phosphatase
RA	2,373,177	G→A	6.4%	G96S (GGC→AGC)	arnF →	undecaprenyl phosphate‑alpha‑L‑ara4N exporter; flippase ArnEF subunit
RA	2,373,180	T→C	7.3%	W97R (TGG→CGG)	arnF →	undecaprenyl phosphate‑alpha‑L‑ara4N exporter; flippase ArnEF subunit
RA	2,375,483	A→T	11.6%	L160L (CTT→CTA) ‡	menC ←	O‑succinylbenzoyl‑CoA synthase
RA	2,375,484	A→T	11.6%	L160H (CTT→CAT) ‡	menC ←	O‑succinylbenzoyl‑CoA synthase
RA	2,383,956	A→T	12.0%	intergenic (+32/+39)	elaD → / ← yfbK	protease, capable of cleaving an AMC‑ubiquitin model substrate/Von Willebrand factor domain putative lipoprotein
RA	2,383,959	A→T	12.5%	intergenic (+35/+36)	elaD → / ← yfbK	protease, capable of cleaving an AMC‑ubiquitin model substrate/Von Willebrand factor domain putative lipoprotein
RA	2,390,012	Δ1 bp	6.9%	intergenic (+48/+36)	yfbP → / ← nuoN	TPR‑like repeats‑containing protein/NADH:ubiquinone oxidoreductase, membrane subunit N
RA	2,390,016:1	+C	6.9%	intergenic (+52/+32)	yfbP → / ← nuoN	TPR‑like repeats‑containing protein/NADH:ubiquinone oxidoreductase, membrane subunit N
RA	2,400,684	T→A	7.7%	Q291L (CAG→CTG)	nuoF ←	NADH:ubiquinone oxidoreductase, chain F
RA	2,415,725	C→A	8.3%	L327M (CTG→ATG) ‡	pta →	phosphate acetyltransferase
RA	2,415,726	T→G	7.4%	L327R (CTG→CGG) ‡	pta →	phosphate acetyltransferase
RA	2,430,144	G→C	6.9%	A32G (GCC→GGC)	purF ←	amidophosphoribosyltransferase
RA	2,432,985	A→G	10.4%	intergenic (‑43/+27)	folC ← / ← accD	bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit
RA	2,432,990	G→C	11.5%	intergenic (‑48/+22)	folC ← / ← accD	bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit
RA	2,432,995	C→T	10.6%	intergenic (‑53/+17)	folC ← / ← accD	bifunctional folylpolyglutamate synthase/ dihydrofolate synthase/acetyl‑CoA carboxylase, beta (carboxyltransferase) subunit
RA	2,462,677	A→T	5.3%	intergenic (+31/‑335)	fadL → / → yfdF	long‑chain fatty acid outer membrane transporter/uncharacterized protein
RA	2,462,678	T→A	5.2%	intergenic (+32/‑334)	fadL → / → yfdF	long‑chain fatty acid outer membrane transporter/uncharacterized protein
RA	2,462,679	A→T	5.1%	intergenic (+33/‑333)	fadL → / → yfdF	long‑chain fatty acid outer membrane transporter/uncharacterized protein
RA	2,474,878	T→C	11.5%	intergenic (+22/‑106)	yfdQ → / → yfdR	CPS‑53 (KpLE1) prophage; uncharacterized protein/CPS‑53 (KpLE1) prophage; conserved protein
RA	2,474,881	G→A	12.6%	intergenic (+25/‑103)	yfdQ → / → yfdR	CPS‑53 (KpLE1) prophage; uncharacterized protein/CPS‑53 (KpLE1) prophage; conserved protein
RA	2,518,082	C→G	9.1%	noncoding (35/76 nt)	alaX ←	tRNA‑Ala
RA	2,518,197	C→G	6.2%	noncoding (35/76 nt)	alaW ←	tRNA‑Ala
RA	2,521,344	C→T	10.8%	intergenic (+16/+249)	lysV → / ← xapR	tRNA‑Lys/transcriptional activator of xapAB
RA	2,521,346	A→T	10.5%	intergenic (+18/+247)	lysV → / ← xapR	tRNA‑Lys/transcriptional activator of xapAB
RA	2,521,348	A→G	10.5%	intergenic (+20/+245)	lysV → / ← xapR	tRNA‑Lys/transcriptional activator of xapAB
RA	2,536,110	G→A	100%	G93S (GGT→AGT)	crr →	glucose‑specific enzyme IIA component of PTS
RA	2,536,370	C→G	12.3%	intergenic (+27/+16)	crr → / ← pdxK	glucose‑specific enzyme IIA component of PTS/pyridoxal‑pyridoxamine kinase/hydroxymethylpyrimidine kinase
RA	2,536,373	C→G	11.3%	intergenic (+30/+13)	crr → / ← pdxK	glucose‑specific enzyme IIA component of PTS/pyridoxal‑pyridoxamine kinase/hydroxymethylpyrimidine kinase
RA	2,549,608	T→C	5.1%	intergenic (+202/+38)	yfeW → / ← yfeX	penicillin binding protein PBP4B; weak DD‑carboxypeptidase activity/porphyrinogen oxidase, cytoplasmic
RA	2,549,609	G→A	5.1%	intergenic (+203/+37)	yfeW → / ← yfeX	penicillin binding protein PBP4B; weak DD‑carboxypeptidase activity/porphyrinogen oxidase, cytoplasmic
RA	2,572,268	T→A	5.5%	A61A (GCA→GCT)	eutM ←	ethanolamine utilization protein, putative carboxysome structural protein
RA	2,590,767	T→C	7.4%	intergenic (+59/+40)	acrD → / ← ypfM	aminoglycoside/multidrug efflux system/stress‑induced small enterobacterial protein
RA	2,590,771	C→G	7.1%	intergenic (+63/+36)	acrD → / ← ypfM	aminoglycoside/multidrug efflux system/stress‑induced small enterobacterial protein
RA	2,590,775	G→A	7.2%	intergenic (+67/+32)	acrD → / ← ypfM	aminoglycoside/multidrug efflux system/stress‑induced small enterobacterial protein
RA	2,592,989	A→G	5.8%	intergenic (+27/+83)	ypfN → / ← ypfH	putative membrane protein, UPF0370 family/palmitoyl‑CoA esterase activity, uncertain physiological substrate
RA	2,592,990	A→C	6.0%	intergenic (+28/+82)	ypfN → / ← ypfH	putative membrane protein, UPF0370 family/palmitoyl‑CoA esterase activity, uncertain physiological substrate
RA	2,593,004	C→T	5.3%	intergenic (+42/+68)	ypfN → / ← ypfH	putative membrane protein, UPF0370 family/palmitoyl‑CoA esterase activity, uncertain physiological substrate
RA	2,596,873	Δ1 bp	9.1%	intergenic (‑136/+32)	ypfJ ← / ← purC	putative neutral zinc metallopeptidase/phosphoribosylaminoimidazole‑succinocarboxamide synthetase
RA	2,596,878:1	+G	9.5%	intergenic (‑141/+27)	ypfJ ← / ← purC	putative neutral zinc metallopeptidase/phosphoribosylaminoimidazole‑succinocarboxamide synthetase
RA	2,620,216	C→T	5.1%	intergenic (‑56/+30)	uraA ← / ← upp	uracil permease/uracil phosphoribosyltransferase
RA	2,622,348:1	+A	6.5%	coding (115/639 nt)	purN →	phosphoribosylglycinamide formyltransferase 1
RA	2,622,354	Δ1 bp	6.2%	coding (121/639 nt)	purN →	phosphoribosylglycinamide formyltransferase 1
RA	2,637,433	C→T	7.6%	intergenic (‑77/+41)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,637,438	T→G	6.0%	intergenic (‑82/+36)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,637,439	C→A	5.7%	intergenic (‑83/+35)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,637,444	A→G	5.6%	intergenic (‑88/+30)	der ← / ← bamB	GTPase; multicopy suppressor of ftsJ/BamABCDE complex OM biogenesis lipoprotein
RA	2,638,584	A→T	12.4%	F23L (TTT→TTA)	bamB ←	BamABCDE complex OM biogenesis lipoprotein
RA	2,639,254	C→T	6.7%	Q10Q (CAG→CAA)	yfgM ←	ancillary SecYEG translocon subunit; putative anti‑RcsB factor
RA	2,653,367	G→A	11.5%	intergenic (+28/‑488)	sseA → / → ryfA	3‑mercaptopyruvate sulfurtransferase/novel sRNA, function unknown
RA	2,653,372	T→C	11.3%	intergenic (+33/‑483)	sseA → / → ryfA	3‑mercaptopyruvate sulfurtransferase/novel sRNA, function unknown
RA	2,654,142	T→A	5.5%	noncoding (288/304 nt)	ryfA →	novel sRNA, function unknown
RA	2,654,143	T→A	5.4%	noncoding (289/304 nt)	ryfA →	novel sRNA, function unknown
RA	2,654,144	T→A	5.4%	noncoding (290/304 nt)	ryfA →	novel sRNA, function unknown
RA	2,672,639	A→C	6.9%	Q198P (CAG→CCG) ‡	hcaD →	phenylpropionate dioxygenase, ferredoxin reductase subunit
RA	2,672,640	G→T	7.0%	Q198H (CAG→CAT) ‡	hcaD →	phenylpropionate dioxygenase, ferredoxin reductase subunit
RA	2,681,969	C→G	5.2%	Q259H (CAG→CAC) ‡	yphG ←	DUF4380 domain‑containing TPR repeat protein
RA	2,681,971	G→A	5.2%	Q259* (CAG→TAG) ‡	yphG ←	DUF4380 domain‑containing TPR repeat protein
RA	2,684,085	A→C	5.2%	intergenic (+29/+169)	yphH → / ← glyA	putative DNA‑binding transcriptional regulator/serine hydroxymethyltransferase
RA	2,691,169	A→T	5.5%	noncoding (172/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,691,171	T→A	5.4%	noncoding (170/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,691,173	A→T	5.3%	noncoding (168/184 nt)	glmY ←	sRNA activator of glmS mRNA, glmZ processing antagonist
RA	2,715,258	A→G	7.6%	A21A (GCT→GCC) ‡	yfiE ←	putative DNA‑binding transcriptional regulator
RA	2,715,259	G→C	7.8%	A21G (GCT→GGT) ‡	yfiE ←	putative DNA‑binding transcriptional regulator
RA	2,715,260	C→T	7.6%	A21T (GCT→ACT) ‡	yfiE ←	putative DNA‑binding transcriptional regulator
RA	2,716,030	T→G	7.2%	intergenic (+20/+36)	eamB → / ← grcA	cysteine and O‑acetylserine exporter/autonomous glycyl radical cofactor
RA	2,716,033	C→A	7.4%	intergenic (+23/+33)	eamB → / ← grcA	cysteine and O‑acetylserine exporter/autonomous glycyl radical cofactor
RA	2,724,095	C→A	9.2%	intergenic (+13/‑33)	pssA → / → yfiM	phosphatidylserine synthase; CDP‑diacylglycerol‑serine O‑phosphatidyltransferase/putative lipoprotein
RA	2,724,097	T→A	8.8%	intergenic (+15/‑31)	pssA → / → yfiM	phosphatidylserine synthase; CDP‑diacylglycerol‑serine O‑phosphatidyltransferase/putative lipoprotein
RA	2,724,099	T→G	8.7%	intergenic (+17/‑29)	pssA → / → yfiM	phosphatidylserine synthase; CDP‑diacylglycerol‑serine O‑phosphatidyltransferase/putative lipoprotein
RA	2,731,073	A→T	6.1%	noncoding (85/1542 nt)	rrsG ←	16S ribosomal RNA of rrnG operon
RA	2,731,074	A→T	5.8%	noncoding (84/1542 nt)	rrsG ←	16S ribosomal RNA of rrnG operon
RA	2,731,580	C→T	10.0%	intergenic (‑423/+20)	rrsG ← / ← clpB	16S ribosomal RNA of rrnG operon/protein disaggregation chaperone
RA	2,731,581	G→T	9.5%	intergenic (‑424/+19)	rrsG ← / ← clpB	16S ribosomal RNA of rrnG operon/protein disaggregation chaperone
RA	2,731,582	A→C	10.0%	intergenic (‑425/+18)	rrsG ← / ← clpB	16S ribosomal RNA of rrnG operon/protein disaggregation chaperone
RA	2,731,583	A→G	10.0%	intergenic (‑426/+17)	rrsG ← / ← clpB	16S ribosomal RNA of rrnG operon/protein disaggregation chaperone
RA	2,737,703	A→G	8.3%	intergenic (+57/‑42)	pheL → / → pheA	pheA gene leader peptide/chorismate mutase and prephenate dehydratase, P‑protein
RA	2,737,705	A→T	8.3%	intergenic (+59/‑40)	pheL → / → pheA	pheA gene leader peptide/chorismate mutase and prephenate dehydratase, P‑protein
RA	2,737,707	C→T	8.2%	intergenic (+61/‑38)	pheL → / → pheA	pheA gene leader peptide/chorismate mutase and prephenate dehydratase, P‑protein
RA	2,737,711	G→A	10.3%	intergenic (+65/‑34)	pheL → / → pheA	pheA gene leader peptide/chorismate mutase and prephenate dehydratase, P‑protein
RA	2,744,147	C→T	5.4%	intergenic (+40/+36)	yfiB → / ← rplS	OM lipoprotein putative positive effector of YfiN activity/50S ribosomal subunit protein L19
RA	2,744,148	A→G	6.9%	intergenic (+41/+35)	yfiB → / ← rplS	OM lipoprotein putative positive effector of YfiN activity/50S ribosomal subunit protein L19
RA	2,750,073	G→T	5.9%	intergenic (+13/+42)	yfjD → / ← grpE	UPF0053 family inner membrane protein/heat shock protein
RA	2,750,078	T→G	5.9%	intergenic (+18/+37)	yfjD → / ← grpE	UPF0053 family inner membrane protein/heat shock protein
RA	2,750,081	C→A	5.9%	intergenic (+21/+34)	yfjD → / ← grpE	UPF0053 family inner membrane protein/heat shock protein
RA	2,750,086	A→C	5.3%	intergenic (+26/+29)	yfjD → / ← grpE	UPF0053 family inner membrane protein/heat shock protein
RA	2,753,986	A→T	5.8%	intergenic (+40/+22)	bamE → / ← ratB	lipoprotein component of BamABCDE OM biogenesis complex/UPF0125 family protein
RA	2,761,620	T→G	6.4%	K641Q (AAG→CAG)	yfjK ←	radiation resistance protein; DEAD/H helicase‑like protein; CP4‑57 putative defective prophage
RA	2,761,623	C→A	5.9%	V640L (GTA→TTA)	yfjK ←	radiation resistance protein; DEAD/H helicase‑like protein; CP4‑57 putative defective prophage
RA	2,767,667	T→G	6.4%	intergenic (+312/‑43)	rnlB → / → yfjP	CP4‑57 prophage; uncharacterized protein/CP4‑57 prophage; 50S ribosome‑binding GTPase family protein
RA	2,767,670	C→A	7.2%	intergenic (+315/‑40)	rnlB → / → yfjP	CP4‑57 prophage; uncharacterized protein/CP4‑57 prophage; 50S ribosome‑binding GTPase family protein
RA	2,777,574	C→T	5.0%	T41M (ACG→ATG)	ypjF →	CP4‑57 prophage; toxin of the YpjF‑YfjZ toxin‑antitoxin system
RA	2,794,080	A→G	8.6%	intergenic (+65/‑173)	gabT → / → gabP	4‑aminobutyrate aminotransferase, PLP‑dependent/gamma‑aminobutyrate transporter
RA	2,794,081	A→C	8.7%	intergenic (+66/‑172)	gabT → / → gabP	4‑aminobutyrate aminotransferase, PLP‑dependent/gamma‑aminobutyrate transporter
RA	2,794,087	T→A	8.6%	intergenic (+72/‑166)	gabT → / → gabP	4‑aminobutyrate aminotransferase, PLP‑dependent/gamma‑aminobutyrate transporter
RA	2,794,088	T→A	8.6%	intergenic (+73/‑165)	gabT → / → gabP	4‑aminobutyrate aminotransferase, PLP‑dependent/gamma‑aminobutyrate transporter
RA	2,794,094	G→T	6.1%	intergenic (+79/‑159)	gabT → / → gabP	4‑aminobutyrate aminotransferase, PLP‑dependent/gamma‑aminobutyrate transporter
RA	2,794,095	C→T	6.1%	intergenic (+80/‑158)	gabT → / → gabP	4‑aminobutyrate aminotransferase, PLP‑dependent/gamma‑aminobutyrate transporter
RA	2,799,634	A→G	9.1%	intergenic (+21/+16)	alaE → / ← ygaC	alanine exporter, alanine‑inducible, stress‑responsive/uncharacterized protein
RA	2,799,635	T→A	9.3%	intergenic (+22/+15)	alaE → / ← ygaC	alanine exporter, alanine‑inducible, stress‑responsive/uncharacterized protein
RA	2,799,636	C→T	9.3%	intergenic (+23/+14)	alaE → / ← ygaC	alanine exporter, alanine‑inducible, stress‑responsive/uncharacterized protein
RA	2,800,515	C→A	9.3%	intergenic (+40/‑208)	ygaM → / → nrdH	putative membrane‑anchored DUF883 family ribosome‑binding protein/hydrogen donor for NrdEF electron transport system; glutaredoxin‑like protein
RA	2,800,517	T→A	7.8%	intergenic (+42/‑206)	ygaM → / → nrdH	putative membrane‑anchored DUF883 family ribosome‑binding protein/hydrogen donor for NrdEF electron transport system; glutaredoxin‑like protein
RA	2,800,519	T→G	8.5%	intergenic (+44/‑204)	ygaM → / → nrdH	putative membrane‑anchored DUF883 family ribosome‑binding protein/hydrogen donor for NrdEF electron transport system; glutaredoxin‑like protein
RA	2,801,056	A→T	16.6%	N31I (AAT→ATT)	nrdI →	NrdEF cluster assembly flavodoxin
RA	2,810,872	C→T	7.1%	H35Y (CAC→TAC) ‡	mprA →	transcriptional repressor of microcin B17 synthesis and multidrug efflux
RA	2,810,873	A→G	7.1%	H35R (CAC→CGC) ‡	mprA →	transcriptional repressor of microcin B17 synthesis and multidrug efflux
RA	2,814,174	T→A	7.5%	intergenic (+20/+44)	emrB → / ← luxS	multidrug efflux system protein/S‑ribosylhomocysteine lyase
RA	2,814,175	T→A	7.5%	intergenic (+21/+43)	emrB → / ← luxS	multidrug efflux system protein/S‑ribosylhomocysteine lyase
RA	2,828,533	A→T	5.5%	intergenic (+17/‑88)	srlD → / → srlM	sorbitol‑6‑phosphate dehydrogenase/sorbitol=responsive srl operon transcriptional activator
RA	2,828,535	T→A	5.5%	intergenic (+19/‑86)	srlD → / → srlM	sorbitol‑6‑phosphate dehydrogenase/sorbitol=responsive srl operon transcriptional activator
RA	2,828,537	A→T	5.5%	intergenic (+21/‑84)	srlD → / → srlM	sorbitol‑6‑phosphate dehydrogenase/sorbitol=responsive srl operon transcriptional activator
RA	2,849,945	A→T	5.0%	intergenic (‑96/+29)	hycB ← / ← hycA	hydrogenase 3, Fe‑S subunit/regulator of the transcriptional regulator FhlA
RA	2,866,487	G→C	6.6%	intergenic (+22/+72)	ygbN → / ← rpoS	putative transporter/RNA polymerase, sigma S (sigma 38) factor
RA	2,866,488	G→C	6.7%	intergenic (+23/+71)	ygbN → / ← rpoS	putative transporter/RNA polymerase, sigma S (sigma 38) factor
RA	2,870,870	T→A	5.7%	E145D (GAA→GAT) ‡	truD ←	tRNA(Glu) pseudouridine(13) synthase
RA	2,870,871	T→A	5.8%	E145V (GAA→GTA) ‡	truD ←	tRNA(Glu) pseudouridine(13) synthase
RA	2,873,915	A→G	8.6%	H26H (CAT→CAC) ‡	cysC ←	adenosine 5'‑phosphosulfate kinase
RA	2,873,917	G→C	8.5%	H26D (CAT→GAT) ‡	cysC ←	adenosine 5'‑phosphosulfate kinase
RA	2,873,919	C→T	8.5%	G25D (GGT→GAT)	cysC ←	adenosine 5'‑phosphosulfate kinase
RA	2,900,322	C→T	6.2%	intergenic (‑49/‑270)	ygcW ← / → yqcE	putative SDR family oxidoreductase/putative MFS transporter, inner membrane protein
RA	2,900,324	G→T	5.7%	intergenic (‑51/‑268)	ygcW ← / → yqcE	putative SDR family oxidoreductase/putative MFS transporter, inner membrane protein
RA	2,900,327	A→C	5.1%	intergenic (‑54/‑265)	ygcW ← / → yqcE	putative SDR family oxidoreductase/putative MFS transporter, inner membrane protein
RA	2,908,486	G→C	5.7%	A394G (GCC→GGC)	pyrG ←	CTP synthetase
RA	2,933,395	G→T	5.8%	C98* (TGC→TGA)	fucA ←	L‑fuculose‑1‑phosphate aldolase
RA	2,933,398	A→T	6.6%	H97Q (CAT→CAA)	fucA ←	L‑fuculose‑1‑phosphate aldolase
RA	2,933,401	A→C	5.6%	V96V (GTT→GTG)	fucA ←	L‑fuculose‑1‑phosphate aldolase
RA	2,939,331	A→G	6.2%	intergenic (+21/‑37)	fucU → / → fucR	L‑fucose mutarotase/l‑fucose operon activator
RA	2,939,333	G→C	6.3%	intergenic (+23/‑35)	fucU → / → fucR	L‑fucose mutarotase/l‑fucose operon activator
RA	2,939,335	C→T	6.3%	intergenic (+25/‑33)	fucU → / → fucR	L‑fucose mutarotase/l‑fucose operon activator
RA	2,951,465	T→C	7.3%	T333A (ACG→GCG)	recD ←	exonuclease V (RecBCD complex), alpha chain
RA	2,951,471	G→A	9.4%	R331C (CGC→TGC)	recD ←	exonuclease V (RecBCD complex), alpha chain
RA	2,951,475	T→A	8.8%	L329L (CTA→CTT)	recD ←	exonuclease V (RecBCD complex), alpha chain
RA	2,951,479	T→C	9.0%	Q328R (CAG→CGG)	recD ←	exonuclease V (RecBCD complex), alpha chain
RA	2,976,754	T→G	5.8%	R52R (CGT→CGG)	galR →	galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor
RA	2,976,758	C→T	5.9%	L54L (CTG→TTG)	galR →	galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor
RA	2,983,573	C→T	7.0%	L184L (CTG→CTA) ‡	kduI ←	hexuronate isomerase
RA	2,983,574	A→G	6.9%	L184P (CTG→CCG) ‡	kduI ←	hexuronate isomerase
RA	3,007,466	T→C	8.7%	intergenic (+14/‑44)	ygeW → / → ygeX	putative carbamoyltransferase/2,3‑diaminopropionate ammonia lyase, PLP‑dependent
RA	3,007,473	G→A	8.5%	intergenic (+21/‑37)	ygeW → / → ygeX	putative carbamoyltransferase/2,3‑diaminopropionate ammonia lyase, PLP‑dependent
RA	3,020,510	G→T	14.8%	intergenic (+21/‑30)	ssnA → / → ygfM	putative chlorohydrolase/aminohydrolase/putative oxidoreductase
RA	3,020,511	C→G	14.6%	intergenic (+22/‑29)	ssnA → / → ygfM	putative chlorohydrolase/aminohydrolase/putative oxidoreductase
RA	3,020,512	A→C	14.6%	intergenic (+23/‑28)	ssnA → / → ygfM	putative chlorohydrolase/aminohydrolase/putative oxidoreductase
RA	3,035,479	G→A	10.3%	T268I (ACC→ATC) ‡	prfB ←	peptide chain release factor RF‑2
RA	3,035,480	T→C	11.0%	T268A (ACC→GCC) ‡	prfB ←	peptide chain release factor RF‑2
RA	3,044,327	C→G	5.3%	S222R (AGC→AGG)	bglA →	6‑phospho‑beta‑glucosidase A
RA	3,044,330	C→G	5.4%	A223A (GCC→GCG)	bglA →	6‑phospho‑beta‑glucosidase A
RA	3,057,140	A→G	5.9%	intergenic (+152/+38)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,057,145	G→C	5.4%	intergenic (+157/+33)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,057,150	C→T	5.5%	intergenic (+162/+28)	sibC → / ← serA	sRNA antisense regulator of toxic IbsC protein/D‑3‑phosphoglycerate dehydrogenase
RA	3,059,703	A→T	8.4%	intergenic (‑2/‑50)	yqfE ← / → argP	pseudogene, LysR family/transcriptional regulator for arginine transport and DNA replication genes; replication initiation inhibitor
RA	3,059,704	A→T	8.3%	intergenic (‑3/‑49)	yqfE ← / → argP	pseudogene, LysR family/transcriptional regulator for arginine transport and DNA replication genes; replication initiation inhibitor
RA	3,061,817	G→C	7.1%	W323S (TGG→TCG) ‡	scpA →	methylmalonyl‑CoA mutase
RA	3,061,818	G→C	7.1%	W323C (TGG→TGC) ‡	scpA →	methylmalonyl‑CoA mutase
RA	3,098,522	G→C	5.2%	intergenic (+119/+36)	yggW → / ← yggM	HemN family putative oxidoreductase/DUF1202 family putative secreted protein
RA	3,101,655	T→A	5.3%	intergenic (‑32/+152)	yggN ← / ← yggL	DUF2884 family putative periplasmic protein/DUF469 family protein
RA	3,101,656	T→A	5.3%	intergenic (‑33/+151)	yggN ← / ← yggL	DUF2884 family putative periplasmic protein/DUF469 family protein
RA	3,108,589	G→T	7.1%	N189K (AAC→AAA)	speC ←	ornithine decarboxylase, constitutive
RA	3,111,961	T→C	5.4%	pseudogene (130/963 nt)	yghE ←	pseudogene, secretion pathway protein, L‑type protein homology; putative general secretion pathway for protein export (GSP)
RA	3,128,203	T→G	5.7%	intergenic (‑182/‑69)	glcD ← / → glcC	glycolate oxidase subunit, FAD‑linked/glycolate‑inducible glc operon transcriptional repressor; autorepressor
RA	3,128,206	C→A	5.1%	intergenic (‑185/‑66)	glcD ← / → glcC	glycolate oxidase subunit, FAD‑linked/glycolate‑inducible glc operon transcriptional repressor; autorepressor
RA	3,131,524	A→G	7.0%	S295S (AGT→AGC) ‡	yghQ ←	putative inner membrane polysaccharide flippase
RA	3,131,525	C→T	6.0%	S295N (AGT→AAT) ‡	yghQ ←	putative inner membrane polysaccharide flippase
RA	3,156,590	C→A	10.7%	intergenic (+72/‑33)	yqhD → / → dkgA	aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A
RA	3,156,591	T→G	10.6%	intergenic (+73/‑32)	yqhD → / → dkgA	aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A
RA	3,164,285:1	+T	6.0%	coding (1689/2259 nt)	parC ←	DNA topoisomerase IV, subunit A
RA	3,164,290	A→T	6.0%	S562T (TCG→ACG)	parC ←	DNA topoisomerase IV, subunit A
RA	3,169,260	Δ1 bp	5.1%	intergenic (‑29/+24)	ygiV ← / ← ygiW	transcriptional repressor for mcbR biofilm gene/hydrogen peroxide and cadmium resistance periplasmic protein; stress‑induced OB‑fold protein
RA	3,169,265:1	+T	5.0%	intergenic (‑34/+19)	ygiV ← / ← ygiW	transcriptional repressor for mcbR biofilm gene/hydrogen peroxide and cadmium resistance periplasmic protein; stress‑induced OB‑fold protein
RA	3,171,852	C→T	6.2%	intergenic (+19/+27)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,171,857	A→T	6.7%	intergenic (+24/+22)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,171,858	A→T	6.7%	intergenic (+25/+21)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,171,863	A→G	6.7%	intergenic (+30/+16)	qseC → / ← ygiZ	quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein
RA	3,180,505	G→T	8.4%	E29* (GAG→TAG) ‡	ygiC →	ATP‑Grasp family ATPase
RA	3,180,506	A→C	8.2%	E29A (GAG→GCG) ‡	ygiC →	ATP‑Grasp family ATPase
RA	3,183,345:1	+T	8.3%	intergenic (+22/+468)	zupT → / ← ribB	zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase
RA	3,183,350	Δ1 bp	7.9%	intergenic (+27/+463)	zupT → / ← ribB	zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase
RA	3,239,609	T→G	6.9%	intergenic (+64/‑335)	alx → / → sstT	putative membrane‑bound redox modulator/sodium:serine/threonine symporter
RA	3,239,610	C→G	6.7%	intergenic (+65/‑334)	alx → / → sstT	putative membrane‑bound redox modulator/sodium:serine/threonine symporter
RA	3,239,611	C→A	6.5%	intergenic (+66/‑333)	alx → / → sstT	putative membrane‑bound redox modulator/sodium:serine/threonine symporter
RA	3,256,441	T→G	6.8%	T71P (ACG→CCG)	yhaM ←	putative L‑serine dehydratase alpha chain
RA	3,256,442	G→C	7.3%	G70G (GGC→GGG) ‡	yhaM ←	putative L‑serine dehydratase alpha chain
RA	3,256,443	C→A	7.3%	G70V (GGC→GTC) ‡	yhaM ←	putative L‑serine dehydratase alpha chain
RA	3,256,450	C→T	7.9%	V68I (GTT→ATT)	yhaM ←	putative L‑serine dehydratase alpha chain
RA	3,288,032	C→A	5.6%	intergenic (+22/‑58)	yraH → / → yraI	putative fimbrial‑like adhesin protein/putative periplasmic pilin chaperone
RA	3,288,033	T→G	6.4%	intergenic (+23/‑57)	yraH → / → yraI	putative fimbrial‑like adhesin protein/putative periplasmic pilin chaperone
RA	3,309,009	C→T	8.5%	intergenic (‑85/+24)	nlpI ← / ← pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase
RA	3,309,012	A→G	12.5%	intergenic (‑88/+21)	nlpI ← / ← pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase
RA	3,313,207	G→A	5.8%	intergenic (‑29/+135)	rbfA ← / ← infB	30s ribosome binding factor/translation initiation factor IF‑2
RA	3,313,208	T→A	5.9%	intergenic (‑30/+134)	rbfA ← / ← infB	30s ribosome binding factor/translation initiation factor IF‑2
RA	3,313,209	T→C	5.9%	intergenic (‑31/+133)	rbfA ← / ← infB	30s ribosome binding factor/translation initiation factor IF‑2
RA	3,318,079	A→T	6.3%	intergenic (‑73/+134)	rimP ← / ← metY	ribosome maturation factor for 30S subunits/tRNA‑Met
RA	3,318,080	A→T	6.1%	intergenic (‑74/+133)	rimP ← / ← metY	ribosome maturation factor for 30S subunits/tRNA‑Met
RA	3,324,952	A→G	9.3%	intergenic (‑41/+49)	folP ← / ← ftsH	7,8‑dihydropteroate synthase/protease, ATP‑dependent zinc‑metallo
RA	3,324,955	A→G	9.1%	intergenic (‑44/+46)	folP ← / ← ftsH	7,8‑dihydropteroate synthase/protease, ATP‑dependent zinc‑metallo
RA	3,324,956	C→T	9.2%	intergenic (‑45/+45)	folP ← / ← ftsH	7,8‑dihydropteroate synthase/protease, ATP‑dependent zinc‑metallo
RA	3,324,959	C→T	9.3%	intergenic (‑48/+42)	folP ← / ← ftsH	7,8‑dihydropteroate synthase/protease, ATP‑dependent zinc‑metallo
RA	3,328,182	A→T	6.2%	intergenic (+99/+57)	yhbY → / ← greA	RNA binding protein associated with pre‑50S ribosomal subunits/transcript cleavage factor
RA	3,328,183	T→A	6.0%	intergenic (+100/+56)	yhbY → / ← greA	RNA binding protein associated with pre‑50S ribosomal subunits/transcript cleavage factor
RA	3,328,184	A→T	6.1%	intergenic (+101/+55)	yhbY → / ← greA	RNA binding protein associated with pre‑50S ribosomal subunits/transcript cleavage factor
RA	3,330,415	Δ1 bp	5.8%	intergenic (+19/+167)	dacB → / ← obgE	D‑alanyl‑D‑alanine carboxypeptidase/GTPase involved in cell partioning and DNA repair
RA	3,330,419:1	+T	5.6%	intergenic (+23/+163)	dacB → / ← obgE	D‑alanyl‑D‑alanine carboxypeptidase/GTPase involved in cell partioning and DNA repair
RA	3,332,822	G→A	13.4%	intergenic (‑87/+40)	yhbE ← / ← rpmA	EamA family inner membrane putative transporter/50S ribosomal subunit protein L27
RA	3,332,823	T→C	13.4%	intergenic (‑88/+39)	yhbE ← / ← rpmA	EamA family inner membrane putative transporter/50S ribosomal subunit protein L27
RA	3,333,057	C→T	5.7%	L21L (CTG→CTA)	rpmA ←	50S ribosomal subunit protein L27
RA	3,334,703	A→G	7.1%	intergenic (+22/‑206)	ispB → / → sfsB	octaprenyl diphosphate synthase/malPQ operon transcriptional activator
RA	3,334,704	G→C	7.2%	intergenic (+23/‑205)	ispB → / → sfsB	octaprenyl diphosphate synthase/malPQ operon transcriptional activator
RA	3,334,705	C→T	7.1%	intergenic (+24/‑204)	ispB → / → sfsB	octaprenyl diphosphate synthase/malPQ operon transcriptional activator
RA	3,361,697	C→G	7.5%	H174Q (CAC→CAG)	gltF →	periplasmic protein
RA	3,368,982	G→C	6.1%	intergenic (+28/+32)	yhcG → / ← yhcH	DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily/DUF386 family protein, cupin superfamily
RA	3,387,553	T→A	8.2%	R212R (CGA→CGT)	aaeB ←	p‑hydroxybenzoic acid efflux system component
RA	3,388,283	T→C	6.8%	T282A (ACA→GCA)	aaeA ←	p‑hydroxybenzoic acid efflux system component
RA	3,388,284	A→T	6.9%	A281A (GCT→GCA) ‡	aaeA ←	p‑hydroxybenzoic acid efflux system component
RA	3,388,285	G→A	7.3%	A281V (GCT→GTT) ‡	aaeA ←	p‑hydroxybenzoic acid efflux system component
RA	3,390,512	A→G	6.4%	intergenic (+63/+71)	aaeR → / ← tldD	transcriptional regulator for aaeXAB operon/putative peptidase
RA	3,390,524	C→T	5.9%	intergenic (+75/+59)	aaeR → / ← tldD	transcriptional regulator for aaeXAB operon/putative peptidase
RA	3,407,293	T→A	5.8%	intergenic (+27/‑82)	accC → / → yhdT	acetyl‑CoA carboxylase, biotin carboxylase subunit/DUF997 family putative inner membrane protein
RA	3,407,294	T→A	5.3%	intergenic (+28/‑81)	accC → / → yhdT	acetyl‑CoA carboxylase, biotin carboxylase subunit/DUF997 family putative inner membrane protein
RA	3,407,295	T→A	5.3%	intergenic (+29/‑80)	accC → / → yhdT	acetyl‑CoA carboxylase, biotin carboxylase subunit/DUF997 family putative inner membrane protein
RA	3,418,628	G→A	6.2%	intergenic (+17/‑414)	yhdV → / → yhdW	putative outer membrane protein/pseudogene, ABC transporter periplasmic binding protein family;putative transport; Not classified; putative periplasmic binding transport protein; periplasmic‑binding component of ABC superfamily
RA	3,418,629	T→C	5.9%	intergenic (+18/‑413)	yhdV → / → yhdW	putative outer membrane protein/pseudogene, ABC transporter periplasmic binding protein family;putative transport; Not classified; putative periplasmic binding transport protein; periplasmic‑binding component of ABC superfamily
RA	3,439,588	G→C	11.1%	intergenic (‑79/+28)	yhdN ← / ← rplQ	DUF1992 family protein/50S ribosomal subunit protein L17
RA	3,439,589	G→C	10.4%	intergenic (‑80/+27)	yhdN ← / ← rplQ	DUF1992 family protein/50S ribosomal subunit protein L17
RA	3,471,361	T→G	5.1%	intergenic (‑32/+39)	tufA ← / ← fusA	translation elongation factor EF‑Tu 1/protein chain elongation factor EF‑G, GTP‑binding
RA	3,471,362	C→A	5.1%	intergenic (‑33/+38)	tufA ← / ← fusA	translation elongation factor EF‑Tu 1/protein chain elongation factor EF‑G, GTP‑binding
RA	3,483,242	G→C	5.0%	S14T (AGC→ACC)	yheT →	UPF0017 family putative hydrolase
RA	3,483,244	A→G	5.1%	S15G (AGT→GGT)	yheT →	UPF0017 family putative hydrolase
RA	3,499,547	G→T	5.4%	D34Y (GAC→TAC)	yhfL →	small lipoprotein
RA	3,539,805	G→A	9.3%	intergenic (+99/‑358)	yhgF → / → feoA	putative transcriptional accessory protein/ferrous iron transporter, protein A
RA	3,539,815	A→T	7.4%	intergenic (+109/‑348)	yhgF → / → feoA	putative transcriptional accessory protein/ferrous iron transporter, protein A
RA	3,539,816	T→A	7.3%	intergenic (+110/‑347)	yhgF → / → feoA	putative transcriptional accessory protein/ferrous iron transporter, protein A
RA	3,539,817	A→T	7.4%	intergenic (+111/‑346)	yhgF → / → feoA	putative transcriptional accessory protein/ferrous iron transporter, protein A
RA	3,560,455:1	+G	100%	intergenic (‑2/+1)	glpR ← / ← glpR	pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon
RA	3,563,539	T→C	7.7%	intergenic (+21/+248)	glpD → / ← yzgL	sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding/pseudogene, periplasmic solute binding protein homology
RA	3,577,657	A→G	6.4%	intergenic (‑65/+74)	gntK ← / ← gntR	gluconate kinase 2/d‑gluconate inducible gluconate regulon transcriptional repressor
RA	3,577,660	C→T	6.6%	intergenic (‑68/+71)	gntK ← / ← gntR	gluconate kinase 2/d‑gluconate inducible gluconate regulon transcriptional repressor
RA	3,642,358	T→A	8.7%	intergenic (+27/+22)	dtpB → / ← rsmJ	dipeptide and tripeptide permease B/16S rRNA m(2)G1516 methyltransferase, SAM‑dependent
RA	3,642,361	T→A	7.2%	intergenic (+30/+19)	dtpB → / ← rsmJ	dipeptide and tripeptide permease B/16S rRNA m(2)G1516 methyltransferase, SAM‑dependent
RA	3,676,195	A→G	5.2%	intergenic (+87/+95)	yhjE → / ← yhjG	putative MFS transporter; membrane protein/putative inner membrane‑anchored periplasmic AsmA family protein
RA	3,676,196	A→C	5.2%	intergenic (+88/+94)	yhjE → / ← yhjG	putative MFS transporter; membrane protein/putative inner membrane‑anchored periplasmic AsmA family protein
RA	3,688,074	G→A	5.2%	P367L (CCT→CTT)	bcsC ←	cellulose synthase subunit
RA	3,708,595	G→A	13.6%	intergenic (‑890/+21)	dppA ← / ← proK	dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro
RA	3,708,596	T→A	13.6%	intergenic (‑891/+20)	dppA ← / ← proK	dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro
RA	3,708,597	T→C	13.5%	intergenic (‑892/+19)	dppA ← / ← proK	dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro
RA	3,714,163:1	+T	9.7%	coding (2232/2334 nt)	bisC ←	biotin sulfoxide reductase
RA	3,714,168	Δ1 bp	9.6%	coding (2227/2334 nt)	bisC ←	biotin sulfoxide reductase
RA	3,722,300	G→T	5.3%	intergenic (+195/+28)	sokA → / ← glyS	pseudogene, sRNA antisense regulator blocking mokA/hokA translation/glycine tRNA synthetase, beta subunit
RA	3,722,301	A→C	5.3%	intergenic (+196/+27)	sokA → / ← glyS	pseudogene, sRNA antisense regulator blocking mokA/hokA translation/glycine tRNA synthetase, beta subunit
RA	3,736,322	G→T	5.4%	intergenic (+165/+31)	xylR → / ← bax	xylose divergent operon transcriptional activator/putative glucosaminidase
RA	3,736,323	A→G	5.7%	intergenic (+166/+30)	xylR → / ← bax	xylose divergent operon transcriptional activator/putative glucosaminidase
RA	3,736,324	C→T	5.5%	intergenic (+167/+29)	xylR → / ← bax	xylose divergent operon transcriptional activator/putative glucosaminidase
RA	3,736,325	A→C	5.6%	intergenic (+168/+28)	xylR → / ← bax	xylose divergent operon transcriptional activator/putative glucosaminidase
RA	3,740,791	G→C	5.5%	G363R (GGC→CGC)	avtA →	valine‑pyruvate aminotransferase; transaminase C; alanine‑valine transaminase
RA	3,774,207	C→T	9.1%	intergenic (+13/‑217)	mtlA → / → mtlD	mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent
RA	3,774,214	C→T	9.9%	intergenic (+20/‑210)	mtlA → / → mtlD	mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent
RA	3,774,215	A→G	9.9%	intergenic (+21/‑209)	mtlA → / → mtlD	mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent
RA	3,774,222	A→G	9.9%	intergenic (+28/‑202)	mtlA → / → mtlD	mannitol‑specific PTS enzyme: IIA, IIB and IIC components/mannitol‑1‑phosphate dehydrogenase, NAD‑dependent
RA	3,781,051	C→G	12.0%	intergenic (+34/‑164)	lldD → / → trmL	L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent
RA	3,781,145	C→G	13.5%	intergenic (+128/‑70)	lldD → / → trmL	L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent
RA	3,790,300	A→T	8.6%	intergenic (‑219/+20)	waaH ← / ← tdh	LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding
RA	3,790,303	A→T	8.4%	intergenic (‑222/+17)	waaH ← / ← tdh	LPS(HepIII)‑glucuronic acid glycosyltransferase/L‑threonine 3‑dehydrogenase, NAD(P)‑binding
RA	3,798,234	A→T	7.5%	intergenic (+27/+5)	waaL → / ← waaU	O‑antigen ligase/lipopolysaccharide core biosynthesis
RA	3,798,235	A→T	7.3%	intergenic (+28/+4)	waaL → / ← waaU	O‑antigen ligase/lipopolysaccharide core biosynthesis
RA	3,814,164	G→A	7.7%	G78D (GGT→GAT)	dut →	deoxyuridinetriphosphatase
RA	3,814,167	T→C	7.5%	I79T (ATC→ACC)	dut →	deoxyuridinetriphosphatase
RA	3,815,816	C→G	7.4%	intergenic (‑48/+18)	pyrE ← / ← rph	orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
RA	3,815,819	C→G	7.3%	intergenic (‑51/+15)	pyrE ← / ← rph	orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
RA	3,817,940	T→A	6.2%	F61I (TTC→ATC)	dinD →	DNA damage‑inducible protein
RA	3,817,948	G→T	6.2%	E63D (GAG→GAT)	dinD →	DNA damage‑inducible protein
RA	3,817,949	A→C	6.2%	I64L (ATC→CTC)	dinD →	DNA damage‑inducible protein
RA	3,845,746	G→A	8.4%	intergenic (+16/+30)	adeD → / ← uhpT	cryptic adenine deaminase/hexose phosphate transporter
RA	3,845,748	C→G	9.3%	intergenic (+18/+28)	adeD → / ← uhpT	cryptic adenine deaminase/hexose phosphate transporter
RA	3,845,750	T→C	8.2%	intergenic (+20/+26)	adeD → / ← uhpT	cryptic adenine deaminase/hexose phosphate transporter
RA	3,852,553	C→A	9.1%	A78S (GCG→TCG)	ilvB ←	acetolactate synthase 2 large subunit
RA	3,852,558	T→A	8.4%	K76I (AAA→ATA) ‡	ilvB ←	acetolactate synthase 2 large subunit
RA	3,852,559	T→A	9.6%	K76* (AAA→TAA) ‡	ilvB ←	acetolactate synthase 2 large subunit
RA	3,852,564	T→G	9.1%	D74A (GAC→GCC)	ilvB ←	acetolactate synthase 2 large subunit
RA	3,853,674	G→T	6.8%	intergenic (+32/‑248)	tisB → / → emrD	toxic membrane persister formation peptide, LexA‑regulated/multidrug efflux system protein
RA	3,853,675	A→T	6.8%	intergenic (+33/‑247)	tisB → / → emrD	toxic membrane persister formation peptide, LexA‑regulated/multidrug efflux system protein
RA	3,853,676	A→T	6.8%	intergenic (+34/‑246)	tisB → / → emrD	toxic membrane persister formation peptide, LexA‑regulated/multidrug efflux system protein
RA	3,853,677	A→C	6.5%	intergenic (+35/‑245)	tisB → / → emrD	toxic membrane persister formation peptide, LexA‑regulated/multidrug efflux system protein
RA	3,891,502	C→G	6.5%	intergenic (+19/‑113)	tnaB → / → mdtL	tryptophan transporter of low affinity/multidrug efflux system protein
RA	3,891,504	T→A	7.3%	intergenic (+21/‑111)	tnaB → / → mdtL	tryptophan transporter of low affinity/multidrug efflux system protein
RA	3,891,506	C→G	5.6%	intergenic (+23/‑109)	tnaB → / → mdtL	tryptophan transporter of low affinity/multidrug efflux system protein
RA	3,911,816	C→T	5.3%	intergenic (‑291/+23)	pstS ← / ← glmS	phosphate ABC transporter periplasmic binding protein/L‑glutamine:D‑fructose‑6‑phosphate aminotransferase
RA	3,911,819	T→G	5.2%	intergenic (‑294/+20)	pstS ← / ← glmS	phosphate ABC transporter periplasmic binding protein/L‑glutamine:D‑fructose‑6‑phosphate aminotransferase
RA	3,911,822	C→A	5.3%	intergenic (‑297/+17)	pstS ← / ← glmS	phosphate ABC transporter periplasmic binding protein/L‑glutamine:D‑fructose‑6‑phosphate aminotransferase
RA	3,923,377	C→T	5.0%	V102M (GTG→ATG)	rsmG ←	16S rRNA m(7)G527 methyltransferase, SAM‑dependent; glucose‑inhibited cell‑division protein
RA	3,959,515	T→A	8.9%	intergenic (+70/+17)	ilvC → / ← ppiC	ketol‑acid reductoisomerase, NAD(P)‑binding/peptidyl‑prolyl cis‑trans isomerase C (rotamase C)
RA	3,971,996	T→A	8.5%	L246Q (CTG→CAG)	wecC →	UDP‑N‑acetyl‑D‑mannosaminuronic acid dehydrogenase
RA	3,991,334	T→A	6.9%	I61N (ATT→AAT) ‡	cyaA →	adenylate cyclase
RA	3,991,335	T→A	6.4%	I61I (ATT→ATA) ‡	cyaA →	adenylate cyclase
RA	4,017,216:1	+A	11.4%	intergenic (+24/‑117)	udp → / → rmuC	uridine phosphorylase/DNA recombination protein
RA	4,017,222	Δ1 bp	12.2%	intergenic (+30/‑111)	udp → / → rmuC	uridine phosphorylase/DNA recombination protein
RA	4,028,482	T→G	5.3%	A97A (GCA→GCC) ‡	fadA ←	3‑ketoacyl‑CoA thiolase (thiolase I)
RA	4,028,483	G→C	5.6%	A97G (GCA→GGA) ‡	fadA ←	3‑ketoacyl‑CoA thiolase (thiolase I)
RA	4,028,484	C→A	5.8%	A97S (GCA→TCA) ‡	fadA ←	3‑ketoacyl‑CoA thiolase (thiolase I)
RA	4,049,986	G→T	9.5%	noncoding (88/109 nt)	spf →	Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent
RA	4,049,989	A→C	9.5%	noncoding (91/109 nt)	spf →	Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent
RA	4,051,259	G→T	8.9%	noncoding (224/245 nt)	csrC →	CsrC sRNA sequesters CsrA, a carbon flux regulator
RA	4,051,262	A→C	9.0%	noncoding (227/245 nt)	csrC →	CsrC sRNA sequesters CsrA, a carbon flux regulator
RA	4,060,261	G→T	13.1%	intergenic (+31/‑186)	typA → / → yihL	GTP‑binding protein/putative DNA‑binding transcriptional regulator
RA	4,060,264	A→C	13.4%	intergenic (+34/‑183)	typA → / → yihL	GTP‑binding protein/putative DNA‑binding transcriptional regulator
RA	4,062,371	A→T	6.3%	N42I (AAT→ATT)	yihN →	MFS transporter family protein
RA	4,070,413	T→G	6.0%	intergenic (‑12/+102)	yihR ← / ← yihS	putative sulphoquinovose mutarotase/sulphoquinovose isomerase
RA	4,082,696	G→C	6.0%	Q22E (CAG→GAG)	fdoH ←	formate dehydrogenase‑O, Fe‑S subunit
RA	4,088,091	G→C	6.1%	intergenic (+34/+16)	yiiG → / ← frvR	DUF3829 family lipoprotein/putative frv operon regulator; contains a PTS EIIA domain
RA	4,116,538	T→G	14.9%	N229H (AAC→CAC)	glpK ←	glycerol kinase
RA	4,116,705	T→G	68.8%	K173T (AAA→ACA)	glpK ←	glycerol kinase
RA	4,127,251	C→T	8.1%	intergenic (+26/+35)	rpmE → / ← yiiX	50S ribosomal subunit protein L31/putative lipid binding hydrolase, DUF830 family protein
RA	4,127,252	A→G	7.1%	intergenic (+27/+34)	rpmE → / ← yiiX	50S ribosomal subunit protein L31/putative lipid binding hydrolase, DUF830 family protein
RA	4,142,509	T→G	7.1%	intergenic (‑288/‑21)	frwA ← / → frwC	putative PTS enzyme: Hpr, enzyme I and II components/putative enzyme IIC component of PTS
RA	4,142,512	C→A	6.8%	intergenic (‑291/‑18)	frwA ← / → frwC	putative PTS enzyme: Hpr, enzyme I and II components/putative enzyme IIC component of PTS
RA	4,144,732	G→C	5.9%	Q246H (CAG→CAC)	pflD →	putative glycine radical domain‑containing pyruvate formate‑lyase
RA	4,144,735	G→C	7.3%	A247A (GCG→GCC)	pflD →	putative glycine radical domain‑containing pyruvate formate‑lyase
RA	4,177,171	T→A	9.9%	intergenic (+43/‑187)	tufB → / → secE	translation elongation factor EF‑Tu 2/preprotein translocase membrane subunit
RA	4,177,172	T→A	8.5%	intergenic (+44/‑186)	tufB → / → secE	translation elongation factor EF‑Tu 2/preprotein translocase membrane subunit
RA	4,227,550	G→A	7.7%	intergenic (+39/‑181)	metH → / → yjbB	homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent/putative Na+/Pi‑cotransporter
RA	4,227,555	A→T	7.3%	intergenic (+44/‑176)	metH → / → yjbB	homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent/putative Na+/Pi‑cotransporter
RA	4,227,560	T→C	7.3%	intergenic (+49/‑171)	metH → / → yjbB	homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent/putative Na+/Pi‑cotransporter
RA	4,229,124	G→A	6.0%	G465D (GGC→GAC)	yjbB →	putative Na+/Pi‑cotransporter
RA	4,229,433:1	+G	6.8%	intergenic (+71/+20)	yjbB → / ← pepE	putative Na+/Pi‑cotransporter/peptidase E, alpha‑aspartyl dipeptidase
RA	4,229,438	Δ1 bp	6.6%	intergenic (+76/+15)	yjbB → / ← pepE	putative Na+/Pi‑cotransporter/peptidase E, alpha‑aspartyl dipeptidase
RA	4,274,740	G→A	7.7%	intergenic (+79/+20)	ssb → / ← yjcB	single‑stranded DNA‑binding protein/putative inner membrane protein
RA	4,274,742	T→A	7.6%	intergenic (+81/+18)	ssb → / ← yjcB	single‑stranded DNA‑binding protein/putative inner membrane protein
RA	4,274,744	T→C	7.6%	intergenic (+83/+16)	ssb → / ← yjcB	single‑stranded DNA‑binding protein/putative inner membrane protein
RA	4,289,094	T→A	7.6%	I444N (ATT→AAT)	nrfA →	nitrite reductase, formate‑dependent, cytochrome
RA	4,291,512	G→A	6.2%	M1M (GTG→ATG) †‡	nrfE →	heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfE
RA	4,291,513	T→C	6.8%	M1A (GTG→GCG) †‡	nrfE →	heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfE
RA	4,295,955	G→A	5.7%	intergenic (+161/+481)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,295,962	T→G	5.1%	intergenic (+168/+474)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,295,964	A→T	5.6%	intergenic (+170/+472)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,295,966	C→A	5.2%	intergenic (+172/+470)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,295,972	T→G	5.3%	intergenic (+178/+464)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,295,973	T→C	5.4%	intergenic (+179/+463)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,296,060	C→T	25.8%	intergenic (+266/+376)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,296,380:1	+CG	100%	intergenic (+586/+56)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA	4,307,294	A→T	16.5%	L169Q (CTG→CAG)	alsK ←	D‑allose kinase
RA	4,307,298	G→A	16.3%	P168S (CCC→TCC)	alsK ←	D‑allose kinase
RA	4,314,227	A→T	8.7%	intergenic (+30/+117)	yjdP → / ← phnP	putative periplasmic protein/5‑phospho‑alpha‑D‑ribosyl 1,2‑cyclic phosphate phosphodiesterase
RA	4,314,233	A→T	11.0%	intergenic (+36/+111)	yjdP → / ← phnP	putative periplasmic protein/5‑phospho‑alpha‑D‑ribosyl 1,2‑cyclic phosphate phosphodiesterase
RA	4,332,868	G→T	6.4%	R135R (CGC→CGA)	basS ←	sensory histidine kinase in two‑component regulatory system with BasR
RA	4,332,871	A→C	5.9%	S134R (AGT→AGG)	basS ←	sensory histidine kinase in two‑component regulatory system with BasR
RA	4,335,654	T→A	8.7%	intergenic (‑64/+40)	eptA ← / ← adiC	lipid A phosphoethanolamine transferase/arginine:agmatine antiporter
RA	4,335,655	T→A	8.2%	intergenic (‑65/+39)	eptA ← / ← adiC	lipid A phosphoethanolamine transferase/arginine:agmatine antiporter
RA	4,336,974	A→T	8.3%	S20T (TCG→ACG)	adiC ←	arginine:agmatine antiporter
RA	4,336,979	A→C	7.8%	M18R (ATG→AGG)	adiC ←	arginine:agmatine antiporter
RA	4,336,981	C→G	8.0%	L17L (CTG→CTC) ‡	adiC ←	arginine:agmatine antiporter
RA	4,336,983	G→T	8.1%	L17M (CTG→ATG) ‡	adiC ←	arginine:agmatine antiporter
RA	4,336,988	A→T	8.6%	V15D (GTC→GAC)	adiC ←	arginine:agmatine antiporter
RA	4,362,528	G→A	7.6%	intergenic (‑175/+23)	yjdQ ← / ← pheU	pseudogene, P4‑like integrase remnant/tRNA‑Phe
RA	4,362,529	T→C	7.7%	intergenic (‑176/+22)	yjdQ ← / ← pheU	pseudogene, P4‑like integrase remnant/tRNA‑Phe
RA	4,365,452	G→T	5.7%	intergenic (‑96/+20)	cutA ← / ← dcuA	divalent‑cation tolerance protein, copper sensitivity/C4‑dicarboxylate antiporter
RA	4,365,453	A→C	6.1%	intergenic (‑97/+19)	cutA ← / ← dcuA	divalent‑cation tolerance protein, copper sensitivity/C4‑dicarboxylate antiporter
RA	4,366,854	T→G	5.6%	intergenic (‑81/+37)	dcuA ← / ← aspA	C4‑dicarboxylate antiporter/aspartate ammonia‑lyase
RA	4,366,855	C→A	5.1%	intergenic (‑82/+36)	dcuA ← / ← aspA	C4‑dicarboxylate antiporter/aspartate ammonia‑lyase
RA	4,371,932	A→C	5.4%	E303A (GAA→GCA)	groL →	Cpn60 chaperonin GroEL, large subunit of GroESL
RA	4,385,206	T→A	5.5%	P456P (CCT→CCA)	yjeM →	putative transporter
RA	4,387,774	G→T	5.1%	P533T (CCG→ACG)	mscM ←	mechanosensitive channel protein, miniconductance
RA	4,387,777	A→C	5.1%	L532V (TTA→GTA)	mscM ←	mechanosensitive channel protein, miniconductance
RA	4,392,617	C→G	8.5%	noncoding (35/76 nt)	glyY →	tRNA‑Gly
RA	4,408,758	T→C	5.7%	L702P (CTG→CCG) ‡	rnr →	exoribonuclease R, RNase R
RA	4,408,759	G→A	6.4%	L702L (CTG→CTA) ‡	rnr →	exoribonuclease R, RNase R
RA	4,409,168	A→C	5.0%	intergenic (+73/‑107)	rnr → / → rlmB	exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
RA	4,409,174	T→G	5.3%	intergenic (+79/‑101)	rnr → / → rlmB	exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
RA	4,409,175	T→C	5.3%	intergenic (+80/‑100)	rnr → / → rlmB	exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
RA	4,424,465	G→T	8.0%	intergenic (+79/+51)	ulaF → / ← yjfY	L‑ribulose 5‑phosphate 4‑epimerase/YhcN family protein, periplasmic
RA	4,424,468	A→C	7.3%	intergenic (+82/+48)	ulaF → / ← yjfY	L‑ribulose 5‑phosphate 4‑epimerase/YhcN family protein, periplasmic
RA	4,426,592	T→A	9.9%	intergenic (+35/+36)	rplI → / ← yjfZ	50S ribosomal subunit protein L9/uncharacterized protein
RA	4,454,591	G→A	10.6%	intergenic (+13/+20)	yjfF → / ← fbp	putative sugar ABC transporter permease/fructose‑1,6‑bisphosphatase I
RA	4,454,592	T→C	10.7%	intergenic (+14/+19)	yjfF → / ← fbp	putative sugar ABC transporter permease/fructose‑1,6‑bisphosphatase I
RA	4,454,594	T→C	10.7%	intergenic (+16/+17)	yjfF → / ← fbp	putative sugar ABC transporter permease/fructose‑1,6‑bisphosphatase I
RA	4,470,951	A→C	10.6%	intergenic (‑38/+35)	ridA ← / ← pyrI	enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit
RA	4,470,952	T→C	10.8%	intergenic (‑39/+34)	ridA ← / ← pyrI	enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit
RA	4,470,957	G→A	10.7%	intergenic (‑44/+29)	ridA ← / ← pyrI	enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit
RA	4,470,958	G→T	10.8%	intergenic (‑45/+28)	ridA ← / ← pyrI	enamine/imine deaminase, reaction intermediate detoxification/aspartate carbamoyltransferase, regulatory subunit
RA	4,472,434	G→A	10.1%	R34* (CGA→TGA)	pyrL ←	pyrBI operon leader peptide
RA	4,472,437	T→C	10.2%	N33D (AAT→GAT)	pyrL ←	pyrBI operon leader peptide
RA	4,479,012	A→T	13.6%	intergenic (+123/+22)	rraB → / ← yjgM	protein inhibitor of RNase E/GNAT family putative N‑acetyltransferase
RA	4,479,016	G→C	13.5%	intergenic (+127/+18)	rraB → / ← yjgM	protein inhibitor of RNase E/GNAT family putative N‑acetyltransferase
RA	4,479,020	A→T	14.2%	intergenic (+131/+14)	rraB → / ← yjgM	protein inhibitor of RNase E/GNAT family putative N‑acetyltransferase
RA	4,498,222	A→T	8.8%	intergenic (+282/‑50)	intB → / → insC1	pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase/IS2 repressor TnpA
RA	4,498,223	A→T	8.7%	intergenic (+283/‑49)	intB → / → insC1	pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase/IS2 repressor TnpA
RA	4,520,500	Δ1 bp	9.8%	intergenic (‑176/+171)	yjhU ← / ← yjhF	putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter
RA	4,520,504:1	+T	9.8%	intergenic (‑180/+167)	yjhU ← / ← yjhF	putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter
RA	4,548,914	G→C	7.0%	G36A (GGT→GCT)	fimH →	minor component of type 1 fimbriae
RA	4,548,917	G→C	7.0%	G37A (GGC→GCC)	fimH →	minor component of type 1 fimbriae
RA	4,548,920	G→C	7.3%	S38T (AGC→ACC)	fimH →	minor component of type 1 fimbriae
RA	4,549,932	T→A	5.0%	intergenic (+222/+21)	fimH → / ← gntP	minor component of type 1 fimbriae/fructuronate transporter
RA	4,551,422	T→A	7.6%	intergenic (‑126/‑214)	gntP ← / → uxuA	fructuronate transporter/mannonate hydrolase
RA	4,566,645	T→A	5.9%	K201I (AAA→ATA) ‡	yjiN ←	zinc‑type alcohol dehydrogenase‑like protein
RA	4,566,646	T→A	6.0%	K201* (AAA→TAA) ‡	yjiN ←	zinc‑type alcohol dehydrogenase‑like protein
RA	4,600,156	C→T	5.1%	A12T (GCC→ACC)	yjjA ←	putative DUF2501 family periplasmic protein
RA	4,610,720	T→A	5.8%	L436Q (CTG→CAG)	prfC →	peptide chain release factor RF‑3
RA	4,612,329	A→G	7.7%	intergenic (+40/‑82)	ytjA → / → yjjU	uncharacterized protein/putative patatin‑like family phospholipase
RA	4,612,330	G→C	8.1%	intergenic (+41/‑81)	ytjA → / → yjjU	uncharacterized protein/putative patatin‑like family phospholipase
RA	4,612,331	C→T	8.3%	intergenic (+42/‑80)	ytjA → / → yjjU	uncharacterized protein/putative patatin‑like family phospholipase
RA	4,638,690	C→T	9.1%	G171G (GGC→GGT)	creD →	inner membrane protein
RA	4,638,691	A→G	9.2%	T172A (ACC→GCC)	creD →	inner membrane protein
RA	4,639,554	A→T	6.8%	intergenic (+24/+36)	creD → / ← arcA	inner membrane protein/response regulator in two‑component regulatory system with ArcB or CpxA
RA	4,639,555	A→T	7.0%	intergenic (+25/+35)	creD → / ← arcA	inner membrane protein/response regulator in two‑component regulatory system with ArcB or CpxA
RA	4,639,556	A→T	6.7%	intergenic (+26/+34)	creD → / ← arcA	inner membrane protein/response regulator in two‑component regulatory system with ArcB or CpxA
RA	4,639,557	A→T	7.7%	intergenic (+27/+33)	creD → / ← arcA	inner membrane protein/response regulator in two‑component regulatory system with ArcB or CpxA

Unassigned missing coverage evidence
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	3423744–3424234	3424544–3424239	6–801	43 [42]	[42] 43	[rrfD]–[rrlD]	[rrfD],[rrlD]

Unassigned new junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 72168	79 (0.800)	4 (0.040) +ATCGGAGC	3/248	NT	5.1%	noncoding (33/85 nt)	REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913	= 411275	NA (NA)					intergenic (+223/+22)	mak/araJ	manno(fructo)kinase/L‑arabinose‑inducible putative transporter, MFS family
*	?	NC_000913	144480 =	126 (1.270)	7 (0.080)	6/248	NT	5.9%	intergenic (+8/‑97)	yadH/yadI	putative ABC transporter permease/putative PTS Enzyme IIA
	?	NC_000913	144508 =	106 (1.140)					intergenic (+36/‑69)	yadH/yadI	putative ABC transporter permease/putative PTS Enzyme IIA
*	?	NC_000913	= 258675	NA (NA)	4 (0.040)	3/264	NT	5.3%	noncoding (1/768 nt)	IS1	repeat region
	?	NC_000913	= 1293022	71 (0.720)					intergenic (‑100/‑505)	hns/tdk	global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase
*	?	NC_000913	274384 =	NA (NA)	3 (0.030)	3/258	NT	NA	noncoding (766/1195 nt)	IS5	repeat region
	?	NC_000913	274422 =	NA (NA)					noncoding (728/1195 nt)	IS5	repeat region
*	?	NC_000913	274620 =	NA (NA)	4 (0.040)	4/246	NT	NA	noncoding (530/1195 nt)	IS5	repeat region
	?	NC_000913	274663 =	NA (NA)					noncoding (487/1195 nt)	IS5	repeat region
*	?	NC_000913	361678 =	81 (0.820)	5 (0.050)	5/256	NT	6.0%	coding (183/612 nt)	lacA	thiogalactoside acetyltransferase
	?	NC_000913	361700 =	79 (0.820)					coding (161/612 nt)	lacA	thiogalactoside acetyltransferase
*	?	NC_000913	= 730045	NA (NA)	7 (0.070)	6/254	NT	NA	coding (463/4194 nt)	rhsC	Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor
	?	NC_000913	= 730067	NA (NA)					coding (485/4194 nt)	rhsC	Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor
*	?	NC_000913	920914 =	95 (0.960)	6 (0.060)	4/254	NT	6.2%	coding (568/1947 nt)	macB	macrolide ABC transporter peremase/ATPase
	?	NC_000913	920962 =	91 (0.960)					coding (616/1947 nt)	macB	macrolide ABC transporter peremase/ATPase
*	?	NC_000913	= 1084726	NA (NA)	3 (0.030)	3/248	NT	NA	noncoding (45/86 nt)	REP95 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP95 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913	= 1084773	NA (NA)					intergenic (+126/‑219)	efeB/phoH	deferrrochelatase, periplasmic/ATP‑binding protein; putative PhoH family P‑loop ATPase
*	?	NC_000913	1100121 =	96 (0.970)	6 (0.060)	6/256	NT	6.3%	coding (482/555 nt)	ycdY	redox enzyme maturation protein (REMP) chaperone for YcdX
	?	NC_000913	1100158 =	85 (0.890)					coding (519/555 nt)	ycdY	redox enzyme maturation protein (REMP) chaperone for YcdX
*	?	NC_000913	1207790 =	37 (0.370)	62 (0.710)	48/232	NT	60.9%	coding (290/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	1209619 =	47 (0.540)					pseudogene (1/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	= 1207805	34 (0.340)	35 (0.400)	29/232	NT	47.7%	coding (305/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	= 1209602	47 (0.540)					pseudogene (18/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	= 1299498	0 (0.000)	97 (1.010)	69/256	NT	100%	intergenic (+253/‑1684)	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
	?	NC_000913	1300698 =	0 (0.000)					intergenic (+1453/‑484)	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
*	?	NC_000913	1630709 =	94 (0.950)	5 (0.050)	4/250	NT	5.7%	coding (205/1461 nt)	ydfI	putative NAD‑dependent D‑mannonate oxidoreductase
	?	NC_000913	1630738 =	76 (0.810)					coding (176/1461 nt)	ydfI	putative NAD‑dependent D‑mannonate oxidoreductase
*	?	NC_000913	2729475 =	39 (0.390)	8 (0.090)	5/244	NT	18.4%	intergenic (‑31/+141)	gltW/rrsG	tRNA‑Glu/16S ribosomal RNA of rrnG operon
	?	NC_000913	= 4168363	35 (0.380)					intergenic (+163/‑9)	rrsB/gltT	16S ribosomal RNA of rrnB operon/tRNA‑Glu
*	?	NC_000913	3148949 =	88 (0.890)	6 (0.060)	5/248	NT	6.7%	intergenic (+12/+28)	gpr/yqhA	L‑glyceraldehyde 3‑phosphate reductase/UPF0114 family putative inner membrane protein
	?	NC_000913	3148970 =	84 (0.900)					intergenic (+33/+7)	gpr/yqhA	L‑glyceraldehyde 3‑phosphate reductase/UPF0114 family putative inner membrane protein
*	?	NC_000913	= 3360184	72 (0.730)	4 (0.040)	3/250	NT	5.5%	coding (987/1419 nt)	gltD	glutamate synthase, 4Fe‑4S protein, small subunit
	?	NC_000913	= 3360201	69 (0.740)					coding (1004/1419 nt)	gltD	glutamate synthase, 4Fe‑4S protein, small subunit
*	?	NC_000913	= 3473551	118 (1.190)	6 (0.060)	6/256	NT	5.0%	coding (531/540 nt)	rpsG	30S ribosomal subunit protein S7
	?	NC_000913	= 3473568	113 (1.180)					coding (514/540 nt)	rpsG	30S ribosomal subunit protein S7
*	?	NC_000913	= 3542317	114 (1.150)	6 (0.060)	3/252	NT	5.3%	coding (1911/2322 nt)	feoB	ferrous iron transporter protein B and GTP‑binding protein; membrane protein
	?	NC_000913	= 3542340	107 (1.130)					coding (1934/2322 nt)	feoB	ferrous iron transporter protein B and GTP‑binding protein; membrane protein
*	?	NC_000913	3622466 =	NA (NA)	10 (0.100)	4/256	NT	15.1%	coding (3275/4236 nt)	rhsB	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
	?	NC_000913	3622497 =	58 (0.590)					coding (3306/4236 nt)	rhsB	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
*	?	NC_000913	3650712 =	NA (NA)	6 (0.060)	6/250	NT	NA	noncoding (1/100 nt)	RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	NC_000913	3650744 =	NA (NA)					noncoding (33/100 nt)	RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
*	?	NC_000913	3721045 =	132 (1.330)	294 (2.990)	141/262	NT	72.7%	noncoding (413/1443 nt)	IS150	repeat region
	?	NC_000913	= 3839774	90 (0.920)					coding (220/819 nt)	nlpA	cytoplasmic membrane lipoprotein‑28
*	?	NC_000913	3743826 =	373 (3.770)	18 (0.190)	10/250	NT	5.2%	coding (84/468 nt)	yiaL	DUF386 family protein
	?	NC_000913	3743864 =	301 (3.210)					coding (122/468 nt)	yiaL	DUF386 family protein
*	?	NC_000913	3852834 =	78 (0.790)	13 (0.140)	7/242	NT	15.6%	intergenic (‑50/+56)	ilvB/ivbL	acetolactate synthase 2 large subunit/ilvB operon leader peptide
	?	NC_000913	3852867 =	69 (0.760)					intergenic (‑83/+23)	ilvB/ivbL	acetolactate synthase 2 large subunit/ilvB operon leader peptide
*	?	NC_000913	= 3852844	79 (0.800)	5 (0.060)	5/242	NT	6.6%	intergenic (‑60/+46)	ilvB/ivbL	acetolactate synthase 2 large subunit/ilvB operon leader peptide
	?	NC_000913	= 3852855	69 (0.760)					intergenic (‑71/+35)	ilvB/ivbL	acetolactate synthase 2 large subunit/ilvB operon leader peptide
*	?	NC_000913	4168332 =	66 (0.670)	4 (0.040)	3/244	NT	7.7%	intergenic (+132/‑40)	rrsB/gltT	16S ribosomal RNA of rrnB operon/tRNA‑Glu
	?	NC_000913	4168374 =	35 (0.380)					noncoding (3/76 nt)	gltT	tRNA‑Glu