Table 3.
FASTA alignment scores for P. falciparum Cyclin, PFE0920c and yeast Cyclin protein, with PfSSM series
| Clustering (%) | Smat | SSmat | PfFmat | PfFSmat |
|---|---|---|---|---|
| 50 | 101.1 (124) | 136.8 (128) | 98.7 (124) | 238.0 (190) |
| 60 | 98.7 (124) | 135.0 (128) | 100.5a (124) | 239.8a,b (190) |
| 70 | 98.7 (124) | 135.0 (128) | 100.5a (124) | 238.0 (190) |
| 80 | 101.7a (124) | 137.9a (128) | 97.0 (122) | 226.3 (190) |
| 90 | 99.9 (124) | 136.2 (128) | 97.6 (124) | 221.6 (190) |
aThe highest obtained scores for the respective columns.
bThe score for the best performing matrix series.
The first column of the table represents the clustering (%) at which the matrices (represented in the subsequent columns along the first row) were calculated. Columns 2–5 represent the alignment scores obtained for each matrix series at different clustering percentages. The values in the closed brackets are the amino acid overlap for the alignment. The standard equivalent matrix values for each corresponding ‘a’ marked cells from columns 2–5 are 99.3 (128), 97 (124), 94.1 (124), 16.2 (11), respectively. Smat = Symmetric matrix; SSmat = Symmetric Scaled matrix; PfFmat = Plasmodium falciparum Fixed matrix; PfFSmat =Plasmodium falciparum Fixed Scaled matrix.