Fig. 2: TFs exhibit preferential modes of local cooperative binding.

a Frequency of Footprint-C 1D peak sites with 1, 2, 3, or 4+ footprints in K562 or HEK293T. b V-plots are shown for two 1 V sites with tracks from Footprint-C fragment ends, 1D signal, DNase-seq, CTCF and MAZ ChIP-seq. c V-plot is shown for one 3 V site with tracks from Footprint-C fragment ends, 1D signal, DNase-seq, TBP, CTCF and ZNF384 ChIP-seq. d Frequency of each TF with footprints in 1 V or 2 V+ sites in K562 or HEK293T. e Frequency of top 40 TF-TF pairs, from all 2 V sites in K562 or HEK293T. f, h Frequency of motif orientation of all CTCF:CTCF (f) or CTCF:FOX (h) pairs from 2 V sites in K562 or HEK293T. g, i Screenshots showing tracks from Footprint-C 1D, CTCF, RAD21, FOXK2 ChIP-seq and MNase-seq in K562. j V-plots of three types of CTCF 1 V sites are shown with CTCF and other TF ChIP-seq, and Footprint-C 1D average signal in K562. A diagram is shown at the bottom. The red arrows in b, c, g, i mark the indexed CTCF or FOX motifs.