Figure 8

Alignment of CODEHOP PCR primers with the nucleotide sequences encoding the "DFAS/QAHN" sequence block (A) Amino acid consensus sequence – see Figure 5C (B) Nucleotide sequences encoding the amino acids in the "DFAS/QAHN" sequence block from the 11 different herpesvirus species that were used to generate the sequence block. (C) Nucleotide sequences from six additional herpesvirus species. (D) Nucleotide sequences of five manually designed primers "DFA", "DFASA", "SLYP1A", "SLYP2A and "QAHNA", and a primer designed using the CODEHOP software (HNLCA). The codons from two conserved serine positions are boxed and nucleotide sequences mismatched with the different 3' degenerate cores of the primers are highlighted in black. The subfamily associations of the different viral species are indicated.