TABLE 2.

Oligonucleotides used in this study

Name	Sequence (5′ → 3′)	Sequence feature			Use
		Nucleotide in NC003450 (underlined)	Restriction site (bold)	Tag (italics)
sugR	CGGAATTCTAGCTCCAAGCAGTGGTCGATCG	2038164	EcoRI		ChIP-to-chip
sugR-Strep	CGGGATCCTTATTTTTCGAACTGCGGGTGGCTCCAAGCGCTTTCTGCAATCACAACTTCTACATCG	2038591	BamHI	StrepTag II	ChIP-to-chip
M13-rev	CACACAGGAAACAGCTATGACCATG				Integration control
P0441-for	GCTAAAAAAGTAGAAATTATCGACC	387199			Gel shift
P0441-rev	GCCGGCTCCGAGTACTAC	387730			Gel shift
P1110-for	GTGATGCCTGCGGTTGCTG	1033597			Gel shift
P1110-rev	CAAATGAGATCACCATGATGACGGC	1034029			Gel shift
P1111-for	CTAAAACTTAACAAGCGCAACCCCC	1034739			Gel shift
P1111-rev	CCGCGGGAGTCGAGAATTTC	1034998			Gel shift
P1142_1143-for	GCGGTGATTCGAGCCGCTAAATCAAG	1060191			Gel shift
P1142_1143-rev	GTGCTGGCTGAGACTAGCTGGC	1059882			Gel shift
P1408_1409-for	GCGACGACGGTGGCAGTGCTGACC	1314735			Gel shift
P1408_1409-rev	CCGGGGCAGTCGCCGCCTGAC	1315095			Gel shift
F4(ptsG)-for	GCATAATCTGACAGTGTGTCCGTTTTC	1422834			Gel shift
F4(ptsG)-rev	GGCTCCCCCGCAATAGATTTGTGG	1423019			Gel shift
P1773_1774-for	GATCGTGTCCAAGGGTTCTCCTCC	1663548			Gel shift
P1773_1774-rev	GCGTACAGTGAGCGCCTGAAGTTC	1664450			Gel shift
P2115-for	GTCGCTTTTCAGGTTCCCGC	2037511			Gel shift
P2115-rev	CTCAACTGCCGTTAATGAGGCAATC	2037865			Gel shift
P2121-for	TCGGACCTTGACCCGATGTCTGGTC	2045575			Gel shift
P2121-rev	CGTGCGTGCAGGCCAACGGAG	2045811			Gel shift
P2157-for	GGCTTTAGGAGCCTAGTGGC	2073290			Gel shift
P2157-rev	CCAGCAATCACTGCGATAGTGATTAG	2072856			Gel shift
P2291-for	GTTTCAACCATAGGCCTGACCTGGC	2207298			Gel shift
P2291-rev	CTAGCCACCGCTGGGCCTAG	2207043			Gel shift
P3068-for	CCCCGATAGTGTATGTGCTGAC	2955520			Gel shift
P3068-rev	CTTAGCACGATCGAGCATCTCGTTA	2955223			Gel shift
P3169_3170-for	GGTAAGACCGCAGCGTAGCTTTTGG	3054803			Gel shift
P3169_3170-rev	CCTTATTCTTGGTCGGCGCCTCG	3053838			Gel shift
P3219-for	GTTGCCAGGCGAGTGGTGAGC	3113669			Gel shift
P3219-rev	CATCTCCTGCGCCAATGAGGACAATC	3113343			Gel shift
P3366_3367-for	GCTGTGAACGACCCAAAACTCAAACTTAG	3242913			Gel shift
P3366_3367-rev	CGGTCGAGTTCTATGCGTTCTGC	3242640			Gel shift
cg2228_for	GTTCGCTACGTCCGAGTGATCACC	2146341			Negative control for gel shift
cg2228_rev_short	CTCAGGCATGATGATGTCAGGC	2146264			Negative control for gel shift
cg2228_rev	GTCCCCCACGATTGTTTAAAAGTC	2145944			Negative control for gel shift
P1145_for	CGTTTCGCAGTACGGAGCG	1063987			Gel shift
P1145_rev	CCTTCACTTCACCCATGGTGTC	1063566			Gel shift
P2837_for	CGCAGCAATGTGATAACAGAGG	2727080			Gel shift
P2837_rev	GGCACACCATGGGTTTCAAAG	2726526			Gel shift
P3048-for	GATTCCTGCTGGACCTGCAGCG	2938454			Gel shift
P3048-rev	CGAAGCTGCGGTTGACCGTGG	2937840			Gel shift
P2831_2833-for	CGGTGATGTTGTTGTACACATTG	2721953			Gel shift
P2831_2833-rev	CAGCGCCGAACGAATAGC	2721178			Gel shift
P1283_1284-for	CGCCTTTAACAAACCCTGTTGAG	1182041			Gel shift
P1283_1284-rev	GCAGCGAGAGAGATGCAC	1181626			Gel shift
P2795_2796-for	GAGTTTGGCAGCTTCCACG	2684967			Gel shift
P2795_2796-rev	GAACAACACTATTGATTGGACCTTC	2684599			Gel shift
P2262-for	TCCCTGATTTCATCGGAGGG	2176106			Gel shift
P2262-rev	GCGAGAACCACGAGGAC	2175455			Gel shift
P0680_0681-for	GGTCCGCGCTTGGACAGT	600827			Gel shift
P0680_0681-rev	GTGTTATGGGCGATGGCATC	601020			Gel shift
P0645-for	ACCCGCCCTCCATCTGCAT	568268			Gel shift
P0645-rev	GAATGGGCATCCACCGGT	568032			Gel shift