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Figure 2 | BMC Bioinformatics

Figure 2

From: Statistical distributions of optimal global alignment scores of random protein sequences

Figure 2

Distribution of scores from global alignments of the LS sequence set whose sequence length is 200aa. The alignments were carried out with the PAM250 matrix and an affine gap penalty of -10 and -2. The sequences were permutated within windows of 10 residues. The distribution of the scores was fitted with three distribution curves indicated by the solid line. (A) The scores were fitted with the gamma distribution. The fitted parameters are: γ = 11.5053, λ = 0.296252, μ = -37.4408, χ2 value is 15.6515 with d.f. = 11; (B) The scores were fitted with the normal distribution. The fitted parameters are: σ = 11.4495, μ = 1.39533; d.f. = 12, χ2 = 815.04; (C) The scores were fitted with the Gumbel distribution. The fitted parameters are: β = 8.927137, μ = -3.75695; d.f. = 12, χ2 = 1001.89.

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