Fig. 2.

Genome of Theiler's disease-associated virus (TDAV). (A) Schematic of the TDAV genome. Protein cleavage sites are putative and were annotated on the basis of homologous inference from HCV (Fig. S1). The “*” gene corresponds to HCV p7, GBV-B p13, GBV-D X, and GBV-A 21 kDa protein (19). (B) Coverage map of sequencing reads from horse A1, horse A2, and antitoxin 2. (C) Median calculated amplicon size based on the distance between the 5′ ends of paired-end sequencing reads mapping to each nucleotide. (D) Overlapping clones recovered and sequenced to confirm the genome assembly (black) and the location of amplicons used in the TDAV detection assay (green; primer pairs labeled below). (E) Pairwise amino acid percentage of identity plot (100-aa windows) of TDAV compared with HCV-gt1, NPHV, and GBV-D. Genome position scale (Lower) refers to A–E.