Fig. 3

Nucleotide preference at TSS. a Sequence logo of the nucleotide bias from −2 to +2 position of TSS. b Distribution of the strength of the TSS (in RRS in Cappable seq) as classified according to their −1 + 1 configuration with R being purine (A or G) and Y being pyrimidine (C or T). c Relative abundance of reads for each of the 16 possible TSS − 1 + 1 dinucleotides. Blue boxes are YR motifs, green boxes are YY or RR motifs and pink boxes are RY motifs. Percentages corresponds to the percentage of TSS having the aforementioned − 1 + 1 configuration (d). Over-represented motifs at − 35 and − 10 bp upstream of TSS with the-1C + 1C dinucleotide configuration