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Table 3 RE BLOSUM 62 matrix for alphabet Σ20 × Σ16

From: Optimal neighborhood indexing for protein similarity search

  C F Y W M L I V G P A T S N H Q E D R K
[C] 9 -2 -2 -2 -1 -1 -1 -1 -3 -3 0 -1 -1 -3 -3 -3 -4 -3 -3 -3
[FY] -2 5 5 1 0 0 -1 -1 -3 -3 -2 -2 -2 -3 0 -2 -3 -3 -2 -3
[W] -2 1 2 11 -1 -2 -3 -3 -2 -4 -3 -2 -3 -4 -2 -2 -3 -4 -3 -3
[ML] -1 0 -1 -2 3 4 1 1 -3 -3 -1 -1 -2 -3 -2 -2 -3 -3 -2 -2
[IV] -1 0 -1 -3 1 1 3 3 -3 -3 -1 0 -2 -3 -3 -2 -3 -3 -3 -2
[G] -3 -3 -3 -2 -3 -4 -4 -3 6 -2 0 -2 0 0 -2 -2 -2 -1 -2 -2
[P] -3 -4 -3 -4 -2 -3 -3 -2 -2 7 -1 -1 -1 -2 -2 -1 -1 -1 -2 -1
[A] 0 -2 -2 -3 -1 -1 -1 0 0 -1 4 0 1 -2 -2 -1 -1 -2 -1 -1
[T] -1 -2 -2 -2 -1 -1 -1 0 -2 -1 0 5 1 0 -2 -1 -1 -1 -1 -1
[S] -1 -2 -2 -3 -1 -2 -2 -2 0 -1 1 1 4 1 -1 0 0 0 -1 0
[N] -3 -3 -2 -4 -2 -3 -3 -3 0 -2 -2 0 1 6 1 0 0 1 0 0
[H] -3 -1 2 -2 -2 -3 -3 -3 -2 -2 -2 -2 -1 1 8 0 0 -1 0 -1
[QE] -3 -3 -2 -2 -1 -3 -3 -2 -2 -1 -1 -1 0 0 0 4 4 1 0 1
[D] -3 -3 -3 -4 -3 -4 -3 -3 -1 -1 -2 -1 0 1 -1 0 2 6 -2 -1
[R] -3 -3 -2 -3 -1 -2 -3 -3 -2 -2 -1 -1 -1 0 0 1 0 -2 5 2
[K] -3 -3 -2 -3 -1 -2 -3 -2 -2 -1 -1 -1 0 0 -1 1 1 -1 2 5
  1. RE BLOSUM 62 matrix for alphabet Σ20 × Σ16. Scores located on the "diagonal" are shown in bold.