Table 6 Functional TFBS constraints used in the promoter simulation

From: Phylogenetic simulation of promoter evolution: estimation and modeling of binding site turnover events and assessment of their impact on alignment tools

Name	Accession no.	Length (bp)	Strand	Location (min, max)	Copy no. (min, max)	Cutoff
YY1E2F	MA0095 (YY1) MA0024 (E2F)	13	+	(20, 30)	(1, 1)	0.90
Pax6	MA0069	14	+	(50, 70)	(1, 1)	0.90
TP53	MA0106	20	+	(360, 400)	(1, 1)	0.90
IRF2	MA0051	18	+	(420, 480)	(1, 1)	0.90
PPARG	MA0066	20	+	(2000, 2080)	(1, 1)	0.90
ROAZ	MA0116	15	+	(2100, 2200)	(1, 1)	0.90

The accession numbers in the second column are from the JASPAR database [39]. 'Location' refers to the restriction on the upstream minimum and maximum distances to transcription start site. YY1E2F is a composite TFBS created by joining the YY1 and E2F sites.

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