miRNA display CGI


Results 1 - 6 of 6 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
4340 3' -56.8 NC_001720.1 + 20229 0.66 0.560128
Target:  5'- aGGCCucggaGACGcCccaGCUGGGCGCUCAGUa -3'
miRNA:   3'- -UUGG-----CUGCaGca-UGACUCGCGGGUCG- -5'
4340 3' -56.8 NC_001720.1 + 19395 0.66 0.560128
Target:  5'- -gUCGugGUCGUACUG-GUcgacgGCCUGGUu -3'
miRNA:   3'- uuGGCugCAGCAUGACuCG-----CGGGUCG- -5'
4340 3' -56.8 NC_001720.1 + 8738 0.69 0.397418
Target:  5'- --aCGAUGUCGUACUGcugGCCCGGg -3'
miRNA:   3'- uugGCUGCAGCAUGACucgCGGGUCg -5'
4340 3' -56.8 NC_001720.1 + 20196 0.69 0.379258
Target:  5'- cGGCCGgaACGUUGUAgaGAGCGUUCuuGGCg -3'
miRNA:   3'- -UUGGC--UGCAGCAUgaCUCGCGGG--UCG- -5'
4340 3' -56.8 NC_001720.1 + 17867 0.77 0.112051
Target:  5'- cGGCCGAUGUCGU-CaGGGCcCCCAGCg -3'
miRNA:   3'- -UUGGCUGCAGCAuGaCUCGcGGGUCG- -5'
4340 3' -56.8 NC_001720.1 + 20317 1.09 0.000517
Target:  5'- aAACCGACGUCGUACUGAGCGCCCAGCu -3'
miRNA:   3'- -UUGGCUGCAGCAUGACUCGCGGGUCG- -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.