Table 1

Transformation of and to g and g when -(10+k) affine gap costs are employed. The PSI-BLAST profile is derived from 128 statistically significant local alignments from the comparison of influenza A virus hemagglutinin precursor to SWISS-PROT. The parameters and are calculated analytically, while g and g are maximum-likelihood estimates. The values in parentheses are those inferred for the PSI-BLAST profile from the statistical parameters for BLOSUM-62.
Scoring system		g		g
BLOSUM-62 matrix	0.3176	0.252	0.134	0.035
PSI-BLAST profile	0.3175	0.254 (0.252)	0.134	0.040 (0.040)