FIG. 2.

Partial sequence of inverted terminal repeats of AAV5. (A) Part of the inverted terminal repeats comprising the first 47 nt that could be deduced at the 5′ end (nt 1 to 47) and the last 49 nt of the 3′ end (nt 4356 to 4404). The lowercase letters “g” and “t” mark the nucleotide pair at positions 38 and 4365 that does not match the repeat. The putative trs (50) and the respective inverted sequence are shown in boldface letters. Note that the underlined sequences may fold back in AAV5 DNA and form a 7-bp double-stranded loop. (B) Alignment of AAV sequences surrounding the trs and the respective inverted positions in the 5′ and 3′ ends of the DNA molecules. The trs consensus sequence and the respective inverted sequences are shown in boldface letters. Dashes indicate gaps introduced in the alignment. Nucleotides included in the alignment were as follows: AAV2, 104 to 133 and 4547 to 4576; AAV3B, 103 to 132 and 4590 to 4619; AAV4, 104 to 133 and 4635 to 4664; AAV6, 104 to 133 and 4551 to 4580; AAV5 partial sequence, 1 to 30 and 4373 to 4402.