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. 2012 Mar 21;13(Suppl 3):S12. doi: 10.1186/1471-2105-13-S3-S12

Figure 3.

Figure 3

The framework of genome-scale ncRNA search using HD seeds. In the first step, HD seed hits (represented by diagonal lines) are identified. Then more sensitive local structural alignment tools such as FOLDALIGN and PLAST-ncRNA are applied in the region surrounding a seed hit. Subsequent analyisis can be conducted on the output of the second stage.