Annotated amino acid sequence alignment of the 15 anti-Hc scFvs. The amino acid sequences of 15 anti-Hc scFvs C1–C5, J1–J5 and N1–N5 were aligned using ClustalW . The inter-domain linker (G4S)3 joins the N-terminal VH domain to the C-terminal VL domain of the scFv. Within each of the VH and VL domains, there are three areas of increased diversity indicating the hypervariable complimentarity determining regions (labelled). Identically-conserved residues are labelled (*), conserved residues are labelled (:) and similar residues are labelled (.) The protein and corresponding DNA sequences (See additional file 2) have been deposited in the EMBL database.