miRNA display CGI


Results 1 - 20 of 28 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
22702 3' -50.1 NC_005091.1 + 29065 0.66 0.97074
Target:  5'- gGCGUGACGccuuccaggauGgGCGGUgaGCUUUUUcAGGa -3'
miRNA:   3'- -CGCGCUGC-----------UgUGCCA--UGAAAAGcUCC- -5'
22702 3' -50.1 NC_005091.1 + 23493 0.66 0.964001
Target:  5'- cGCGCGGCGAUggcgcugcuCGGU-CUgUUCGGcGGc -3'
miRNA:   3'- -CGCGCUGCUGu--------GCCAuGAaAAGCU-CC- -5'
22702 3' -50.1 NC_005091.1 + 48767 0.66 0.963637
Target:  5'- aCGCGGCaggccguGACACGG-GCaa-UCGGGGa -3'
miRNA:   3'- cGCGCUG-------CUGUGCCaUGaaaAGCUCC- -5'
22702 3' -50.1 NC_005091.1 + 53909 0.66 0.960253
Target:  5'- uGCGCGaACG--GCGGUACgcUUUCGAa- -3'
miRNA:   3'- -CGCGC-UGCugUGCCAUGa-AAAGCUcc -5'
22702 3' -50.1 NC_005091.1 + 31923 0.67 0.951969
Target:  5'- uCGUGACGACGCGG-GCgaa-CGuGGc -3'
miRNA:   3'- cGCGCUGCUGUGCCaUGaaaaGCuCC- -5'
22702 3' -50.1 NC_005091.1 + 26569 0.67 0.947422
Target:  5'- uCGCGACGcGCugGGUGagucgUUCGAa- -3'
miRNA:   3'- cGCGCUGC-UGugCCAUgaa--AAGCUcc -5'
22702 3' -50.1 NC_005091.1 + 37390 0.67 0.947422
Target:  5'- uCGCGACaGCGCGGgaaGCgUUUUUGaAGGa -3'
miRNA:   3'- cGCGCUGcUGUGCCa--UG-AAAAGC-UCC- -5'
22702 3' -50.1 NC_005091.1 + 1947 0.67 0.9426
Target:  5'- aCGCGACGAUGCGGccGCcgugUCGAa- -3'
miRNA:   3'- cGCGCUGCUGUGCCa-UGaaa-AGCUcc -5'
22702 3' -50.1 NC_005091.1 + 5445 0.68 0.920507
Target:  5'- aGCGCGgacaGCGcCAuguguuucCGGUGCU--UCGAGGc -3'
miRNA:   3'- -CGCGC----UGCuGU--------GCCAUGAaaAGCUCC- -5'
22702 3' -50.1 NC_005091.1 + 33951 0.68 0.920507
Target:  5'- aCGCcgGGCGGCGuCGGUaGCgaaUUCGAGGc -3'
miRNA:   3'- cGCG--CUGCUGU-GCCA-UGaa-AAGCUCC- -5'
22702 3' -50.1 NC_005091.1 + 42798 0.68 0.907769
Target:  5'- uGCGCGACGAgAUGcUGCg---CGAGa -3'
miRNA:   3'- -CGCGCUGCUgUGCcAUGaaaaGCUCc -5'
22702 3' -50.1 NC_005091.1 + 18948 0.69 0.886587
Target:  5'- cCGgGGCGucuuCACGGUGUUUUUCGAcGGc -3'
miRNA:   3'- cGCgCUGCu---GUGCCAUGAAAAGCU-CC- -5'
22702 3' -50.1 NC_005091.1 + 3320 0.69 0.875876
Target:  5'- cGCGCGAUugucgaaGGCACGGUuGCUuccggcgugucccuUUUCGAaGGc -3'
miRNA:   3'- -CGCGCUG-------CUGUGCCA-UGA--------------AAAGCU-CC- -5'
22702 3' -50.1 NC_005091.1 + 51200 0.69 0.87113
Target:  5'- gGCGCGACGGCgACGauuuagggucGUACgugagUCGAGc -3'
miRNA:   3'- -CGCGCUGCUG-UGC----------CAUGaaa--AGCUCc -5'
22702 3' -50.1 NC_005091.1 + 4829 0.7 0.854661
Target:  5'- gGCGCGGCGGCaACGGUcaaGCggg-CGAa- -3'
miRNA:   3'- -CGCGCUGCUG-UGCCA---UGaaaaGCUcc -5'
22702 3' -50.1 NC_005091.1 + 40728 0.7 0.854661
Target:  5'- uGCGCGuaccgagaauucGCGACGCGGcugUACggcgUCGAGu -3'
miRNA:   3'- -CGCGC------------UGCUGUGCC---AUGaaa-AGCUCc -5'
22702 3' -50.1 NC_005091.1 + 6009 0.7 0.843441
Target:  5'- uGCGUcgucuauguacgagGGCGGCGCGG-ACguucgggcgUUCGAGGa -3'
miRNA:   3'- -CGCG--------------CUGCUGUGCCaUGaa-------AAGCUCC- -5'
22702 3' -50.1 NC_005091.1 + 52570 0.7 0.828195
Target:  5'- gGCGCGACGcACGCGGUAa----CGAa- -3'
miRNA:   3'- -CGCGCUGC-UGUGCCAUgaaaaGCUcc -5'
22702 3' -50.1 NC_005091.1 + 46093 0.71 0.799834
Target:  5'- uGCGUucCGGCGCGGUGCg---CGAGc -3'
miRNA:   3'- -CGCGcuGCUGUGCCAUGaaaaGCUCc -5'
22702 3' -50.1 NC_005091.1 + 15317 0.71 0.799834
Target:  5'- cGCGCGGCGGCAgCGGgacgGCUa--CGuGGc -3'
miRNA:   3'- -CGCGCUGCUGU-GCCa---UGAaaaGCuCC- -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.