RNA22 v2 microRNA target detection

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Click here to download a program that will allow you to submit batch requests (Note: updated 09April2015, prior versions won't work)
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Please cite: Miranda, KC et al (2006) A pattern-based method for the identification of MicroRNA binding sites and their corresponding heteroduplexes Cell, 126, 1203-1217, 10.1016/j.cell.2006.07.031.


Input up to 50 microRNA sequence(s) (fasta format):


Input single target sequence (fasta format):


Output Format: Heteroduplex's Text Table
Sensitivity vs. Specificity setting:
Seed/nucleus region:
Minimum number of paired-up bases in heteroduplex:
Maximum folding energy for heteroduplex (Kcal/mol):
Maximum number of G:U wobbles allowed in seed region:



We gratefuly acknowledge use of the Vienna RNA Package originally described in: Fast Folding and comparison of RNA secondary structures, Hofacker et al. Monatshefte fuer Chemie, Vol 125, 167-188, 1996.