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
32582 3' -53 NC_007151.1 + 79699 0.66 0.978061
Target:  5'- uUCaGGCUCUgguaugacuGGUGGUGguggCGGAggaggACGAg -3'
miRNA:   3'- gAG-CCGAGG---------UUACCACa---GCCUa----UGCU- -5'
32582 3' -53 NC_007151.1 + 81161 0.66 0.975598
Target:  5'- -aCGGCUCUcc--GUGUucucCGGAUGCGAa -3'
miRNA:   3'- gaGCCGAGGuuacCACA----GCCUAUGCU- -5'
32582 3' -53 NC_007151.1 + 30623 0.68 0.939132
Target:  5'- aUUGGCUUCAAUuGUacGUCGGcgACGAu -3'
miRNA:   3'- gAGCCGAGGUUAcCA--CAGCCuaUGCU- -5'
32582 3' -53 NC_007151.1 + 130349 1.09 0.005893
Target:  5'- gCUCGGCUCCAAUGGUGUCGGAUACGAc -3'
miRNA:   3'- -GAGCCGAGGUUACCACAGCCUAUGCU- -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.