Fig. 2

Determination of the stem-loop structure with the HaDV2 sequence. a The predicted stem-loop structure of HaDV2 genome. Nucleotides of the 3′ terminal hairpin and reverse complementary sequences are shown. Numbers indicate locations of the nucleotides on the HaDV2 genome (5′-3′). The primers used for determining the stem-loop structure were shown, including three forward primers DVF1, DVF2, DVF3 and two reverse primers DVR1, DVR2. b Alignment of terminal nucleotide sequences from different clones to confirm the stem-loop structure. Clone names shown on the left indicate their amplification primers and clone numbers (e.g., clone DVF1-DVR1-1 stands for one clone amplified by primers DVF1/DVR1). The numbers show the nucleotide location on the genome of HaDV2. “The stem region” indicates the double DNA region as show in (a). “.” = identical nucleotides; “-” = absence of nucleotides