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
22050 3' -55 NC_004927.1 + 25750 1.13 0.000919
Target:  5'- uUCCCACGCCUGACCUCGGUAGAUACCg -3'
miRNA:   3'- -AGGGUGCGGACUGGAGCCAUCUAUGG- -5'
22050 3' -55 NC_004927.1 + 62433 0.67 0.794088
Target:  5'- uUCCCcCGCCUGuCCacaCGGcAGGUAUUg -3'
miRNA:   3'- -AGGGuGCGGACuGGa--GCCaUCUAUGG- -5'
22050 3' -55 NC_004927.1 + 27119 0.66 0.803475
Target:  5'- gUCgCCGCG-CUGAagUCUCaGGUAGAcGCCg -3'
miRNA:   3'- -AG-GGUGCgGACU--GGAG-CCAUCUaUGG- -5'
22050 3' -55 NC_004927.1 + 21532 0.65 0.847681
Target:  5'- -aCCACGUCgUGACCggCGGgaguGAUgACCu -3'
miRNA:   3'- agGGUGCGG-ACUGGa-GCCau--CUA-UGG- -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.