Sequence conservation at the P. falciparum TSS. (a) Nucleotide frequencies in the region from -100 to +50 nucleotides around 3,546 P. falciparum TSSs. (b) The frequency of each position in the 150 nucleotides around aligned TSS was calculated to generate a position specific scoring matrix. The information content of each position in the matrix was calculated by Σi (pi* log2(pi/bi)), where pi = frequency of nucleotide i at that position and bi = background frequency of i. Background frequencies were calculated from P. falciparum intergenic DNA (bA = 0.42, bT = 0.45, bG = 0.07, bC = 0.06).
Brick et al. Genome Biology 2008 9:R178 doi:10.1186/gb-2008-9-12-r178