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. 2014 Oct 21;42(20):12367–12379. doi: 10.1093/nar/gku921

Figure 1.

Figure 1.

Distribution of potential non-B DNA regions. Distributions of (A) G-quadruplex in template strand, (B) G-quadruplex in non-template strand, (C) Z-DNA, (D) slipped DNA, (E) cruciform, (F) H-DNA and (G) SIDD are shown as normalized densities in the 5 kb upstream and downstream region around the TSS of human protein coding genes. This was done based on central base of each potential non-B DNA region. The normalized density was defined as the number of structures in each position normalized by the number of total genes. For smoothing, for each position, potential non-B DNA regions were counted within a 101-nucleotide window centered at that position, and then normalized by the length of the window. Normalized densities are also shown for randomized sequences (dotted curves, not for SIDD). The randomized sequences were generated from original sequences aligned according to the TSS of genes, while keeping nucleotide composition for each position (see Materials and Methods for details). Each of the density computations in panels (A) through (F) was done for all genes together and for three disjoint high, medium and low GC content gene groups.