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Table 7 Gumbel law parameters λ and K for different alphabets, obtained with the corresponding RE BLOSUM score matrices.

From: Optimal neighborhood indexing for protein similarity search

alphabets

λ

K

Σ20 × Σ20

0.320

0.139

Σ20 × Σ16

0.333

0.143

Σ20 × Σ8

0.223

0.142

Σ20 × Σ4

0.212

0.128

Σ20 × Σ2

0.161

0.101

  1. RE BLOSUM 62 matrix for alphabet Σ20 × Σ2. Scores located on the "diagonal" are shown in bold.
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BMC Bioinformatics

ISSN: 1471-2105

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