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Table 1 Matrix generation criteria.

From: A novel series of compositionally biased substitution matrices for comparing Plasmodium proteins

Matrix S Z W r B
CBM/12-0-0 12 0 0 - 6
CBM/12-1-0 12 1 0 - 22
CBM/12-1-1 12 1 1 - 24
CBM/12-2-0 12 2 0 - 24
CBM/12-2-1 12 2 1 - 25
CBM/11-0-0 11 0 0 - 49
CBM/11-1-0 11 1 0 - 116
CBM/11-1-1 11 1 1 - 141
CBM/11-2-0 11 2 0 - 141
CBM/11-2-1 11 2 1 - 147
CBM/10-0-0 10 0 0 - 245
CBM/10-1-0 10 1 0 - 498
CBM/10-1-1 10 1 1 - 591
CBM/10-2-0 10 2 0 - 597
CBM/10-2-1 10 2 1 - 662
CBM/09-0-0 9 0 0 - 873
CBM/09-1-0 9 1 0 - 1505
CBM/09-1-1 9 1 1 - 1759
CBM/09-2-0 9 2 0 - 1784
CBM/09-2-1 9 2 1 - 1947
CCFMAT70 - - - 0.70 137
CCFMAT53 - - - 0.53 1196
CCFMAT50 - - - 0.50 1508
  1. S = Required number of amino acids with expected deviation from BLOSUM62 values; Z = number of S amino acids allowed to be absent; W = value of one means tryptophan was allowed to be absent in addition to Z others; r = correlation coefficient lower limit; B = number of resultant blocks.