Figure 1.
Classification of retrotransposons identified by FASTX and TFASTX searches. Fractions shown are percentages of total retrotransposon-containing STCs. FASTX searches were conducted using the rice STC database as queries to search the 1358-member TE database. Classification as gypsy, copia, or non-LTR was made on the basis of the most similar transposable element protein sequence. TFASTX searches were conducted using Gypsy-like rice RIRE2 (BAA84458, 1397 homologous STCs), Copia-likeHopscotch from maize (T02087, 528 homologous STCs), and a rice non-LTR LINE (CAA73800, 119 homologous STCs) as queries to search the STC database.
