miRNA display CGI


Results 1 - 12 of 12 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
28343 3' -60.2 NC_005946.1 + 37190 0.66 0.602879
Target:  5'- aAGC-CGUgGUaCCUGCACaCGGGGucggACGCc -3'
miRNA:   3'- -UCGuGCGgCA-GGACGUG-GUCCC----UGUG- -5'
28343 3' -60.2 NC_005946.1 + 11084 0.66 0.602879
Target:  5'- uGGC-CGCCG-CCaGCcCCAGGGucucguACACg -3'
miRNA:   3'- -UCGuGCGGCaGGaCGuGGUCCC------UGUG- -5'
28343 3' -60.2 NC_005946.1 + 72743 0.66 0.592639
Target:  5'- aGGCugGCGUgGUCCggcGCugCGGGGucCGCg -3'
miRNA:   3'- -UCG--UGCGgCAGGa--CGugGUCCCu-GUG- -5'
28343 3' -60.2 NC_005946.1 + 14910 0.66 0.592639
Target:  5'- cGUAgGCCGUCUUGUggcccGCUAuGGGAgACg -3'
miRNA:   3'- uCGUgCGGCAGGACG-----UGGU-CCCUgUG- -5'
28343 3' -60.2 NC_005946.1 + 88337 0.67 0.576321
Target:  5'- aGGCG-GCCGggcaggcacuggaccUCCUcagGCGCgAGGGGCACu -3'
miRNA:   3'- -UCGUgCGGC---------------AGGA---CGUGgUCCCUGUG- -5'
28343 3' -60.2 NC_005946.1 + 47146 0.7 0.384647
Target:  5'- uGCAgGCCGUCCUuUACCcuGGugACa -3'
miRNA:   3'- uCGUgCGGCAGGAcGUGGucCCugUG- -5'
28343 3' -60.2 NC_005946.1 + 94982 0.7 0.368186
Target:  5'- aGGCACGCCaacguaGUCCUG----AGGGACACa -3'
miRNA:   3'- -UCGUGCGG------CAGGACguggUCCCUGUG- -5'
28343 3' -60.2 NC_005946.1 + 2651 0.71 0.344415
Target:  5'- uGCuACGCCGggggCUGCAgcgccuucacacCCAGGGGCACc -3'
miRNA:   3'- uCG-UGCGGCag--GACGU------------GGUCCCUGUG- -5'
28343 3' -60.2 NC_005946.1 + 63981 0.72 0.307298
Target:  5'- cGCACGCgG-CCUuCAUgAGGGACGCg -3'
miRNA:   3'- uCGUGCGgCaGGAcGUGgUCCCUGUG- -5'
28343 3' -60.2 NC_005946.1 + 47304 0.75 0.18005
Target:  5'- cGUACGCCGUCCUGUcuCCAaacucGGGCACa -3'
miRNA:   3'- uCGUGCGGCAGGACGu-GGUc----CCUGUG- -5'
28343 3' -60.2 NC_005946.1 + 95119 0.76 0.16265
Target:  5'- uGCAgGCgGUCCUGaggaucgcuccCACCAGGGACAa -3'
miRNA:   3'- uCGUgCGgCAGGAC-----------GUGGUCCCUGUg -5'
28343 3' -60.2 NC_005946.1 + 9164 1.08 0.000741
Target:  5'- cAGCACGCCGUCCUGCACCAGGGACACu -3'
miRNA:   3'- -UCGUGCGGCAGGACGUGGUCCCUGUG- -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.