miRNA display CGI


Results 1 - 20 of 71 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
23027 5' -55.7 NC_005178.1 + 6853 1.14 0.00022
Target:  5'- aGCAGGGCAUCACCGACCAGGAUCAGCa -3'
miRNA:   3'- -CGUCCCGUAGUGGCUGGUCCUAGUCG- -5'
23027 5' -55.7 NC_005178.1 + 7468 0.8 0.071978
Target:  5'- cCAGGGCAUCACCcuGGCCuGGAgcgaaccgaUCAGCu -3'
miRNA:   3'- cGUCCCGUAGUGG--CUGGuCCU---------AGUCG- -5'
23027 5' -55.7 NC_005178.1 + 11461 0.78 0.110636
Target:  5'- cGCAGGGCcgCACCGAUCAGccaccaggcgggcaGAcCGGCa -3'
miRNA:   3'- -CGUCCCGuaGUGGCUGGUC--------------CUaGUCG- -5'
23027 5' -55.7 NC_005178.1 + 3528 0.77 0.132585
Target:  5'- cGUAGGGCAUCgACCaccACCAGGGccgacUCGGCc -3'
miRNA:   3'- -CGUCCCGUAG-UGGc--UGGUCCU-----AGUCG- -5'
23027 5' -55.7 NC_005178.1 + 33971 0.76 0.136031
Target:  5'- cCAGGccgccgaGCAUCGCCG-CCAGGcgCGGCa -3'
miRNA:   3'- cGUCC-------CGUAGUGGCuGGUCCuaGUCG- -5'
23027 5' -55.7 NC_005178.1 + 23360 0.75 0.157156
Target:  5'- cCGGGGCGUCGC--ACCAGGG-CGGCa -3'
miRNA:   3'- cGUCCCGUAGUGgcUGGUCCUaGUCG- -5'
23027 5' -55.7 NC_005178.1 + 32083 0.75 0.161632
Target:  5'- cCAGGGUcagGUCGUCGGCguGGGUCGGCa -3'
miRNA:   3'- cGUCCCG---UAGUGGCUGguCCUAGUCG- -5'
23027 5' -55.7 NC_005178.1 + 10109 0.75 0.161632
Target:  5'- -aGGGGCGaugggCGCUGGCCAGGAgcgCGGUg -3'
miRNA:   3'- cgUCCCGUa----GUGGCUGGUCCUa--GUCG- -5'
23027 5' -55.7 NC_005178.1 + 12480 0.75 0.17093
Target:  5'- uCGGGGUugucaucaGUCACCGccACCGGGGUCGGg -3'
miRNA:   3'- cGUCCCG--------UAGUGGC--UGGUCCUAGUCg -5'
23027 5' -55.7 NC_005178.1 + 15334 0.74 0.187835
Target:  5'- uGCAGGGCGUCgggGCCaucgucguggucugcGGCCGGGAaguggcgCAGCu -3'
miRNA:   3'- -CGUCCCGUAG---UGG---------------CUGGUCCUa------GUCG- -5'
23027 5' -55.7 NC_005178.1 + 16606 0.73 0.237262
Target:  5'- aGCuGGGCGUCcagguGCCGGucaacuggguCCAGGAgCAGCu -3'
miRNA:   3'- -CGuCCCGUAG-----UGGCU----------GGUCCUaGUCG- -5'
23027 5' -55.7 NC_005178.1 + 14410 0.72 0.256912
Target:  5'- cCAGGuCGUCGCCGACCAccaGGUCAGg -3'
miRNA:   3'- cGUCCcGUAGUGGCUGGUc--CUAGUCg -5'
23027 5' -55.7 NC_005178.1 + 13934 0.72 0.256912
Target:  5'- cGCcGGGCggCGCUGGCCuucGGGUCGGg -3'
miRNA:   3'- -CGuCCCGuaGUGGCUGGu--CCUAGUCg -5'
23027 5' -55.7 NC_005178.1 + 37146 0.72 0.263752
Target:  5'- cCAGG---UCGCCGACCGGGAcgcCAGCg -3'
miRNA:   3'- cGUCCcguAGUGGCUGGUCCUa--GUCG- -5'
23027 5' -55.7 NC_005178.1 + 4887 0.72 0.263752
Target:  5'- --uGGGCAUCaaGCCGGCCGGGAcCAu- -3'
miRNA:   3'- cguCCCGUAG--UGGCUGGUCCUaGUcg -5'
23027 5' -55.7 NC_005178.1 + 25987 0.72 0.263752
Target:  5'- aCAGuGGCAUCccGCUGGCCAGGcuggugaccacGUCGGUg -3'
miRNA:   3'- cGUC-CCGUAG--UGGCUGGUCC-----------UAGUCG- -5'
23027 5' -55.7 NC_005178.1 + 28397 0.72 0.277875
Target:  5'- cCAGGGaccaggcaCACCGACCAGcGA-CAGCa -3'
miRNA:   3'- cGUCCCgua-----GUGGCUGGUC-CUaGUCG- -5'
23027 5' -55.7 NC_005178.1 + 18198 0.71 0.284424
Target:  5'- cGCGGuGGCGUCuAUgGGCCGGGccaaauggagaacAUCAGCc -3'
miRNA:   3'- -CGUC-CCGUAG-UGgCUGGUCC-------------UAGUCG- -5'
23027 5' -55.7 NC_005178.1 + 5402 0.71 0.292594
Target:  5'- uCGGGGCcgCACCGGuguacagcuCCAGGuUCAGg -3'
miRNA:   3'- cGUCCCGuaGUGGCU---------GGUCCuAGUCg -5'
23027 5' -55.7 NC_005178.1 + 96 0.71 0.300179
Target:  5'- -gAGGGCGUUuggaaaauAUCGAUCAGGAUUgAGCa -3'
miRNA:   3'- cgUCCCGUAG--------UGGCUGGUCCUAG-UCG- -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.