Fig. 1.

Alignment of the oligonucleotides of the BKV real-time PCR. The top sequence corresponds to the Dunlop prototype strain. Each line corresponds to a representative sequence for a variant. The accession number and the position of the first nucleotide in the database entry are indicated. The number of sequences constituting a variant and the percentage of the total number of sequences are shown in the two columns on the right. Nucleotides identical to the query sequence are indicated as a dot (.); substitutions are indicated by the corresponding nucleotide one-letter code. Gaps are indicated by an underscore; insertions are denoted by a backslash (\). The binding sites of the oligonucleotides are underlined in the query sequence and shaded gray in the alignment. The corresponding sequences of JCV and simian virus 40 (SV40) are shown for comparison. The sequences of the updated oligonucleotides BK-Deg-Forward, -Reverse, and -Probe are shown on the last line.