miRNA display CGI


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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
4361 3' -56.5 NC_001720.1 + 23604 0.66 0.595859
Target:  5'- gGAGCCggCCGgaACGUUguagagagcguucUUGGCGCCc -3'
miRNA:   3'- -UUCGGagGGCaaUGCAGa------------AGCCGCGG- -5'
4361 3' -56.5 NC_001720.1 + 16133 0.67 0.523857
Target:  5'- cGGGCagUCCGUUcccaGUCagUUCGGCGCCg -3'
miRNA:   3'- -UUCGgaGGGCAAug--CAG--AAGCCGCGG- -5'
4361 3' -56.5 NC_001720.1 + 18032 1.1 0.000477
Target:  5'- uAAGCCUCCCGUUACGUCUUCGGCGCCa -3'
miRNA:   3'- -UUCGGAGGGCAAUGCAGAAGCCGCGG- -5'
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.