Software versions used: SAM 3.5 (Jul 2005) [37] (link), NCBI BLAST+ 2.2.24+ (Aug 2010) [3] (link), FASTA 36.3.3 (Feb 2011) [40] , WU-BLAST 2.0MP-WashU (May 2006), HMMER 2.3.2 (Oct 2003), and HMMER 3.0 (Mar 2010).
Example sequence alignments and profile HMMs were sampled from Seed alignments and profiles in Pfam 24 [11] (link). Example target sequences were sampled from UniProt version 2011_03 [43] (link). One experiment that characterized roundoff error used older versions, Pfam 22 and UniProt 7.0.
Example sequence alignments and profile HMMs were sampled from Seed alignments and profiles in Pfam 24 [11] (link). Example target sequences were sampled from UniProt version 2011_03 [43] (link). One experiment that characterized roundoff error used older versions, Pfam 22 and UniProt 7.0.
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