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
3411 5' -57.4 NC_001576.1 + 4561 0.66 0.157013
Target:  5'- gCgAUCUGC-CAaGGUGG-UGCCCUCUa -3'
miRNA:   3'- -GgUGGACGuGUcCCGCUaACGGGAGG- -5'
3411 5' -57.4 NC_001576.1 + 197 0.68 0.103858
Target:  5'- aUACa-GCACA-GGCGAagGUCCUCCa -3'
miRNA:   3'- gGUGgaCGUGUcCCGCUaaCGGGAGG- -5'
3411 5' -57.4 NC_001576.1 + 6352 0.68 0.100559
Target:  5'- --uCCUGCACGGGGUucccUUGCCCcaaugcucUCCc -3'
miRNA:   3'- gguGGACGUGUCCCGcu--AACGGG--------AGG- -5'
3411 5' -57.4 NC_001576.1 + 6347 1.12 0.000018
Target:  5'- cCCACCUGCACAGGGCGAUUGCCCUCCc -3'
miRNA:   3'- -GGUGGACGUGUCCCGCUAACGGGAGG- -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.