Table 2.

TFBS words corresponding to two clusters, and thereby displaying possible positional regulation of TF tissue specificity

DNA Word	Factor	Distance from TSS (bp)	Tissues	Activation(+)/ Repression(−)
CAGGTGAG	ER-alpha, T3R-beta1, Sp1, Ets	158,a 104b	WHOLEBLOOD,a Amygdalab	+
CGCCCCGC	E2F-1, AP-2alphaA, NRF-1, Egr-1	−59,a −176b	Cardiac Myocytes,a Uterus Corpusb	−
CGCCGCCG	AP-2alphaA, c-Ets-2, Sp1	14,a −17b	BM-CD71+EarlyErythroid,a Thyroid,a fetalbrainb	+
GCGGCGGG	p53	20,a −56b	TrigeminalGanglion,a Appendixb	−
GCGGGGCC	Sp1, Sp3, MyoD, AP-2beta	−57,a −15b	Bronchialepithelialcells,a 721_B_lymphoblasts,b SmoothMuscleb	+
GGCGGCGC	Sp1, HIF-1, GKLF, NF-Y, CTCF	−39,a 19b	Ovary,a AdrenalCortex,b Appendix,b OlfactoryBulbb	−

For simplicity, only three examples have been provided for each case (activation and repression). The rows in the table reflect the lexicographic order of the words in column 1. Each word corresponds to TFs in column 2. Each word corresponds to two clusters, whose average positions relative to the TSS are in column 3. Superscripts link the entries in columns 3 and 4, to indicate the relation between the position-specific binding and the tissue-specific regulation of each TF.