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
23043 3' -54 NC_005178.1 + 20598 0.66 0.671895
Target:  5'- --aCGGCgGCGAGCUGGAcgGCcugaUCAa- -3'
miRNA:   3'- agaGCUGaCGCUCGACCUa-CG----AGUac -5'
23043 3' -54 NC_005178.1 + 25693 0.69 0.490974
Target:  5'- -aUCGACccggucacucGCGAGCUGGAgaaGCUCGa- -3'
miRNA:   3'- agAGCUGa---------CGCUCGACCUa--CGAGUac -5'
23043 3' -54 NC_005178.1 + 22497 0.7 0.418618
Target:  5'- aCUCGAC-GCGcAGCUGGG-GCUCu-- -3'
miRNA:   3'- aGAGCUGaCGC-UCGACCUaCGAGuac -5'
23043 3' -54 NC_005178.1 + 24024 1.1 0.000626
Target:  5'- uUCUCGACUGCGAGCUGGAUGCUCAUGg -3'
miRNA:   3'- -AGAGCUGACGCUCGACCUACGAGUAC- -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.