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Effect of the smoothing parameter. Example of two sequences si and sj and the corresponding oligo functions for ω = TAG for small (left) and large (right) smoothing parameter σ3. On the left-hand side, it can be seen that the larger σ3 results in Gaussians that are still overlapping although the motif TAG is shifted in the two sequences. On the right-hand side, the shifted TAG motifs do not increase the kernel function due to the strongly peaked Gaussian.
