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Table 1 Comparison of the performance of HHpred against Hmmpfam in detecting remote homologs

From: Tracing the origin of functional and conserved domains in the human proteome: implications for protein evolution at the modular level

  HHpred method Hmmpfam method
Pfam-A hits for sequences 74% 64%
Residues covered by Pfam-A hits 54% 34%
Unique Pfam-A families found 3853 3192