Figure 2.
Aligned consensus sequences of selected subfamilies. (Top) The consensus sequence of the entire Alu family, with positions labeled from 1 to 282. (Middle) The consensus sequences of six Alu subfamilies we identified that are currently reported in Repbase Update: AluJo, AluSx, AluSq, AluSp, AluY, and AluYa5; the few discrepancies between our consensus sequences and the consensus sequences reported in Repbase Update occur mostly at CpG dinucleotide positions, which are ill-determined because of frequent mutation. (Bottom) The consensus sequences of six Alu subfamilies we identified that are not currently reported in Repbase Update: AluSx_3, AluSx_5, AluSq_3, AluSg_4, AluSc_8, and AluY_8.
