miRNA display CGI


Results 1 - 20 of 29 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
12179 3' -57.1 NC_003309.1 + 46161 1.12 0.000344
Target:  5'- aGCGUCACGCACCGCCAUGCAGCAGUCg -3'
miRNA:   3'- -CGCAGUGCGUGGCGGUACGUCGUCAG- -5'
12179 3' -57.1 NC_003309.1 + 16581 0.83 0.045123
Target:  5'- aGCG-CA-GUACCGUCGUGCAGCAGUCg -3'
miRNA:   3'- -CGCaGUgCGUGGCGGUACGUCGUCAG- -5'
12179 3' -57.1 NC_003309.1 + 9418 0.77 0.11637
Target:  5'- cCGUCgACGagagACCGCgCAUGCGGCGGUCg -3'
miRNA:   3'- cGCAG-UGCg---UGGCG-GUACGUCGUCAG- -5'
12179 3' -57.1 NC_003309.1 + 16704 0.75 0.176045
Target:  5'- aGCG-CGCGCACCGCCuuc--GCGGUCg -3'
miRNA:   3'- -CGCaGUGCGUGGCGGuacguCGUCAG- -5'
12179 3' -57.1 NC_003309.1 + 6036 0.71 0.2886
Target:  5'- aGCGUCuggucgcgcuggaAUGCACUGaCCAUGUGGCcGUCg -3'
miRNA:   3'- -CGCAG-------------UGCGUGGC-GGUACGUCGuCAG- -5'
12179 3' -57.1 NC_003309.1 + 43536 0.71 0.307134
Target:  5'- cGCG-CACGCcgucgGCgGCCAUcgcgcgcaucaggucGCGGCAGUCu -3'
miRNA:   3'- -CGCaGUGCG-----UGgCGGUA---------------CGUCGUCAG- -5'
12179 3' -57.1 NC_003309.1 + 11769 0.71 0.317126
Target:  5'- cGCGUCgGCGCGCCcggcgaucagccccGCCAUGCGgaccuGCGcGUCg -3'
miRNA:   3'- -CGCAG-UGCGUGG--------------CGGUACGU-----CGU-CAG- -5'
12179 3' -57.1 NC_003309.1 + 22615 0.71 0.319467
Target:  5'- cCGUCGC-CACCggcuGCCGUGCAGU-GUCg -3'
miRNA:   3'- cGCAGUGcGUGG----CGGUACGUCGuCAG- -5'
12179 3' -57.1 NC_003309.1 + 34211 0.7 0.349393
Target:  5'- cCGUCGgGCuaccgaCGCCAUGCAGCAcaacuucgcgauccGUCg -3'
miRNA:   3'- cGCAGUgCGug----GCGGUACGUCGU--------------CAG- -5'
12179 3' -57.1 NC_003309.1 + 51056 0.7 0.360371
Target:  5'- gGCGUCaACGC-CCGCCAgaUGCcuGCGGa- -3'
miRNA:   3'- -CGCAG-UGCGuGGCGGU--ACGu-CGUCag -5'
12179 3' -57.1 NC_003309.1 + 19774 0.69 0.38661
Target:  5'- uCGUCGCGuCGCCgGCCAU-CGGCGGg- -3'
miRNA:   3'- cGCAGUGC-GUGG-CGGUAcGUCGUCag -5'
12179 3' -57.1 NC_003309.1 + 16276 0.69 0.395632
Target:  5'- -aGUCGCGCACgaUCGcGUAGCAGUCg -3'
miRNA:   3'- cgCAGUGCGUGgcGGUaCGUCGUCAG- -5'
12179 3' -57.1 NC_003309.1 + 22583 0.69 0.404789
Target:  5'- aGCGaCGCGCAgCCGCUcaGUGcCAGCGG-Ca -3'
miRNA:   3'- -CGCaGUGCGU-GGCGG--UAC-GUCGUCaG- -5'
12179 3' -57.1 NC_003309.1 + 5150 0.69 0.414078
Target:  5'- cGCGUCgccGCGCGCCGCCGcgaGC-GCAcGUa -3'
miRNA:   3'- -CGCAG---UGCGUGGCGGUa--CGuCGU-CAg -5'
12179 3' -57.1 NC_003309.1 + 19497 0.69 0.414078
Target:  5'- cGCGUCGuCGCGauUCGgCGUGCGGCuGUa -3'
miRNA:   3'- -CGCAGU-GCGU--GGCgGUACGUCGuCAg -5'
12179 3' -57.1 NC_003309.1 + 9514 0.69 0.423497
Target:  5'- aGCG-CGCGCACCGUgAccugcacgcuUGCGGCGuUCg -3'
miRNA:   3'- -CGCaGUGCGUGGCGgU----------ACGUCGUcAG- -5'
12179 3' -57.1 NC_003309.1 + 22321 0.68 0.442714
Target:  5'- cGCaa-GCGCcgGCCGCCAUGCcaAGCAG-Cg -3'
miRNA:   3'- -CGcagUGCG--UGGCGGUACG--UCGUCaG- -5'
12179 3' -57.1 NC_003309.1 + 5568 0.68 0.442714
Target:  5'- uUGUCuuCGCGCgCGCCGaucGCGGCGGUg -3'
miRNA:   3'- cGCAGu-GCGUG-GCGGUa--CGUCGUCAg -5'
12179 3' -57.1 NC_003309.1 + 11448 0.68 0.472435
Target:  5'- uCGUCGC-CGCCGUCuguUGCggacacgaAGCGGUCa -3'
miRNA:   3'- cGCAGUGcGUGGCGGu--ACG--------UCGUCAG- -5'
12179 3' -57.1 NC_003309.1 + 13446 0.67 0.492798
Target:  5'- aGCGUCGuauCGCCGCCGUGCccuuGUAccGUCg -3'
miRNA:   3'- -CGCAGUgc-GUGGCGGUACGu---CGU--CAG- -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.