Table 4 CDD annotations of true positive search results
Number and (%) of TPs for which (query, subject) | |||||
|---|---|---|---|---|---|
Method | Number of TPs | Both match | Both match | Both match | Either matches |
same CD | same CDD | only different | no CD | ||
superfamily | superfamilies | ||||
DELTA-BLAST | 51,968 | 48,612 (93.5) | 49,001 (94.3) | 2,521 (4.9) | 446 (0.9) |
PSI-BLAST | 45,033 | 40,194 (89.3) | 40,989 (91.0) | 3,110 (6.9) | 934 (2.1) |
BLASTP | 16,083 | 15,769 (98.1) | 15,475 (96.2) | 437 (2.7) | 171 (1.1) |
CS-BLAST | 21,353 | 19,791 (92.7) | 19,919 (93.3) | 1,263 (5.9) | 171 (0.8) |
Benchmark TPs | 196,490 | 60,663 (30.9) | 95,073 (48.4) | 88,994 (45.3) | 12,423 (6.3) |