Motifs data base
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if the motifs are binding sites for RNA binding proteins i would suggest ATtRACT because is more updated, it contains more motifs, and all of them experimentally validated http://attract.cnic.es/ if you are interested: paper
If they're RNA motifs try the motif scan in CIS-BP-RNA to find related motifs from RNA-binding proteins using Tomtom. If they're DNA try the motif scan in CIS-BP to find related motifs from TFs using Tomtom.
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