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
9420 5' -53.7 NC_002531.1 + 95264 0.66 0.927937
Target:  5'- -uCACUGaaGGUGCGAGUaGUGCUccaGCu -3'
miRNA:   3'- uuGUGAUgcCCACGCUCA-CAUGAc--CG- -5'
9420 5' -53.7 NC_002531.1 + 38054 0.67 0.922358
Target:  5'- -cCACUugGGG-GCGAGcggugggaaGUGCgGGCc -3'
miRNA:   3'- uuGUGAugCCCaCGCUCa--------CAUGaCCG- -5'
9420 5' -53.7 NC_002531.1 + 29185 0.7 0.752655
Target:  5'- --aACUACGGGggaaGCuuGUGUACUGGa -3'
miRNA:   3'- uugUGAUGCCCa---CGcuCACAUGACCg -5'
9420 5' -53.7 NC_002531.1 + 29307 1.1 0.002961
Target:  5'- aAACACUACGGGUGCGAGUGUACUGGCa -3'
miRNA:   3'- -UUGUGAUGCCCACGCUCACAUGACCG- -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.