miRanda is an algorithm for finding genomic targets for microRNAs. This algorithm has been written in C and is available as an open-source method under the GPL. miRanda reads RNA sequences (such as microRNAs) from file1 and genomic DNA/RNA sequences from file2. Both of these files should be in FASTA format.
the Computational Biology Center of Memorial Sloan-Kettering Cancer Center.
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John B, Enright AJ, Aravin A, Tuschl T, Sander C, Marks DS.,
Human MicroRNA Targets
PLoS Biol. 2005 Jul;3(7):e264.