Table 1
Transformation of and to _{g} and _{g} when (10+k) affine gap costs are employed. The PSIBLAST profile is derived from 128 statistically significant local alignments from the comparison of influenza A virus hemagglutinin precursor to SWISSPROT. The parameters and are calculated analytically, while _{g} and _{g} are maximumlikelihood estimates. The values in parentheses are those inferred for the PSIBLAST profile from the statistical parameters for BLOSUM62.



Scoring system 

_{g} 

_{g} 

BLOSUM62 matrix 
0.3176 
0.252 
0.134 
0.035 
PSIBLAST profile 
0.3175 
0.254 (0.252) 
0.134 
0.040 (0.040) 

