miRNA display CGI


Results 1 - 13 of 13 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
27364 3' -59.5 NC_005857.1 + 17600 0.66 0.465897
Target:  5'- gGCgAuGGCGCUGUCUGAUgUGgcguaucCGGGCa -3'
miRNA:   3'- -CGgU-CCGCGAUAGGCUGgAC-------GUCCGc -5'
27364 3' -59.5 NC_005857.1 + 16751 0.66 0.436919
Target:  5'- aGCCGGGCuacaucauuggacugGCUGaugaacuUCUGGCCggacgcgugaacgGCGGGCGu -3'
miRNA:   3'- -CGGUCCG---------------CGAU-------AGGCUGGa------------CGUCCGC- -5'
27364 3' -59.5 NC_005857.1 + 9606 0.66 0.436919
Target:  5'- cGCCAGaaucaauGCGCUGUUCGucGCCUGCu-GCa -3'
miRNA:   3'- -CGGUC-------CGCGAUAGGC--UGGACGucCGc -5'
27364 3' -59.5 NC_005857.1 + 15925 0.67 0.428429
Target:  5'- uCCAGGUGCUccCCG-CUUGC-GGCa -3'
miRNA:   3'- cGGUCCGCGAuaGGCuGGACGuCCGc -5'
27364 3' -59.5 NC_005857.1 + 20180 0.67 0.40085
Target:  5'- gGCCAGGuCGCUAUUCaGcuucgugaucGCCUGCcccuGGCu -3'
miRNA:   3'- -CGGUCC-GCGAUAGG-C----------UGGACGu---CCGc -5'
27364 3' -59.5 NC_005857.1 + 23806 0.67 0.40085
Target:  5'- gGCCAGGuCGCUAUUCaGcuucgugaucGCCUGCcccuGGCu -3'
miRNA:   3'- -CGGUCC-GCGAUAGG-C----------UGGACGu---CCGc -5'
27364 3' -59.5 NC_005857.1 + 50052 0.67 0.40085
Target:  5'- cGCUgauGGCGCUGUgccguuUCGGCUgGCAGGUGc -3'
miRNA:   3'- -CGGu--CCGCGAUA------GGCUGGaCGUCCGC- -5'
27364 3' -59.5 NC_005857.1 + 13437 0.67 0.40085
Target:  5'- cCCAGGaaCGCUua-CGGCCUGCAaauuacgucauGGCGa -3'
miRNA:   3'- cGGUCC--GCGAuagGCUGGACGU-----------CCGC- -5'
27364 3' -59.5 NC_005857.1 + 8077 0.67 0.383104
Target:  5'- cGCCGGGUuucccccauuugGUUAg-CGuGCCUGCAGGCa -3'
miRNA:   3'- -CGGUCCG------------CGAUagGC-UGGACGUCCGc -5'
27364 3' -59.5 NC_005857.1 + 32231 0.69 0.295191
Target:  5'- cGCCAGGCGCUccucaaUCGAUUcaaGCAGGCc -3'
miRNA:   3'- -CGGUCCGCGAua----GGCUGGa--CGUCCGc -5'
27364 3' -59.5 NC_005857.1 + 11287 0.7 0.274111
Target:  5'- cGCCA-GCGaug-CUGACCUGCAGcGCGc -3'
miRNA:   3'- -CGGUcCGCgauaGGCUGGACGUC-CGC- -5'
27364 3' -59.5 NC_005857.1 + 17366 0.71 0.235593
Target:  5'- cGCCGGuCGUUAUCUGGCCcgUGUccGGGCGa -3'
miRNA:   3'- -CGGUCcGCGAUAGGCUGG--ACG--UCCGC- -5'
27364 3' -59.5 NC_005857.1 + 9343 1.1 0.000272
Target:  5'- gGCCAGGCGCUAUCCGACCUGCAGGCGa -3'
miRNA:   3'- -CGGUCCGCGAUAGGCUGGACGUCCGC- -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.