miRNA display CGI


Results 1 - 20 of 60 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
29985 3' -58.5 NC_006273.1 + 3 0.77 0.315633
Target:  5'- aUUCCGGGCcgugUGCugGGuCCCCGagGGGCGg -3'
miRNA:   3'- gAAGGUCUG----ACGugCC-GGGGU--UCCGC- -5'
29985 3' -58.5 NC_006273.1 + 241 0.69 0.720571
Target:  5'- --gCCAGACaagacgcggGCGCaagggaggagucgcgGGCCCCGGGGCa -3'
miRNA:   3'- gaaGGUCUGa--------CGUG---------------CCGGGGUUCCGc -5'
29985 3' -58.5 NC_006273.1 + 707 1.09 0.0025
Target:  5'- cCUUCCAGACUGCACGGCCCCAAGGCGg -3'
miRNA:   3'- -GAAGGUCUGACGUGCCGGGGUUCCGC- -5'
29985 3' -58.5 NC_006273.1 + 14318 0.69 0.754308
Target:  5'- -aUCCGG-CUGCGgguucUGGCCCUGAcGGCGc -3'
miRNA:   3'- gaAGGUCuGACGU-----GCCGGGGUU-CCGC- -5'
29985 3' -58.5 NC_006273.1 + 16570 0.68 0.798951
Target:  5'- ---aCGGACUGC-UGGCCCUucGAGGUa -3'
miRNA:   3'- gaagGUCUGACGuGCCGGGG--UUCCGc -5'
29985 3' -58.5 NC_006273.1 + 24559 0.68 0.778787
Target:  5'- -gUCCGGGCuuuccuugucacguUGuCugGGCgCCCGAGGUGc -3'
miRNA:   3'- gaAGGUCUG--------------AC-GugCCG-GGGUUCCGC- -5'
29985 3' -58.5 NC_006273.1 + 29402 0.69 0.7357
Target:  5'- -gUCgCAGGC-GUagACGGCCCCGguauAGGCGa -3'
miRNA:   3'- gaAG-GUCUGaCG--UGCCGGGGU----UCCGC- -5'
29985 3' -58.5 NC_006273.1 + 30685 0.66 0.896696
Target:  5'- -cUCgGGGCUcGC-CGGCgacaCCCAAGGCc -3'
miRNA:   3'- gaAGgUCUGA-CGuGCCG----GGGUUCCGc -5'
29985 3' -58.5 NC_006273.1 + 33223 0.71 0.648788
Target:  5'- --cCCGGuaGC-GCACcgagGGCCCCGGGGCGg -3'
miRNA:   3'- gaaGGUC--UGaCGUG----CCGGGGUUCCGC- -5'
29985 3' -58.5 NC_006273.1 + 38067 0.71 0.636021
Target:  5'- -gUCCAGcucgggcagcagccGCcGCGCGGCCUCGGcGGCGg -3'
miRNA:   3'- gaAGGUC--------------UGaCGUGCCGGGGUU-CCGC- -5'
29985 3' -58.5 NC_006273.1 + 39166 0.67 0.832214
Target:  5'- --gCCGGGCUGCgGCGGUgcUCCGAgcGGCGu -3'
miRNA:   3'- gaaGGUCUGACG-UGCCG--GGGUU--CCGC- -5'
29985 3' -58.5 NC_006273.1 + 39941 0.77 0.315633
Target:  5'- aUUCCGGGCcgugUGCugGGuCCCCGagGGGCGg -3'
miRNA:   3'- gAAGGUCUG----ACGugCC-GGGGU--UCCGC- -5'
29985 3' -58.5 NC_006273.1 + 40179 0.69 0.720571
Target:  5'- --gCCAGACaagacgcggGCGCaagggaggagucgcgGGCCCCGGGGCa -3'
miRNA:   3'- gaaGGUCUGa--------CGUG---------------CCGGGGUUCCGc -5'
29985 3' -58.5 NC_006273.1 + 40184 0.67 0.854679
Target:  5'- uCUUuuGGAggauguuCUGCACGGCgUCCGAcGGCGu -3'
miRNA:   3'- -GAAggUCU-------GACGUGCCG-GGGUU-CCGC- -5'
29985 3' -58.5 NC_006273.1 + 44434 0.67 0.855427
Target:  5'- ---gUAGGaggGCAcCGuGCCCCGAGGCGg -3'
miRNA:   3'- gaagGUCUga-CGU-GC-CGGGGUUCCGC- -5'
29985 3' -58.5 NC_006273.1 + 49052 0.67 0.832214
Target:  5'- uUUCCAGAC-GCACgauGGCCUCAcgccGGCc -3'
miRNA:   3'- gAAGGUCUGaCGUG---CCGGGGUu---CCGc -5'
29985 3' -58.5 NC_006273.1 + 49147 0.66 0.869982
Target:  5'- --gCCAGACgGUagACGGCgUCCAuGGCGg -3'
miRNA:   3'- gaaGGUCUGaCG--UGCCG-GGGUuCCGC- -5'
29985 3' -58.5 NC_006273.1 + 49885 0.68 0.804946
Target:  5'- ---aCAGACggUGCccaucugcccacgaAgGGCCCCAGGGCGc -3'
miRNA:   3'- gaagGUCUG--ACG--------------UgCCGGGGUUCCGC- -5'
29985 3' -58.5 NC_006273.1 + 57195 0.72 0.560801
Target:  5'- --aCCAGAauCUGCACGGUgCCCGuaGGGCa -3'
miRNA:   3'- gaaGGUCU--GACGUGCCG-GGGU--UCCGc -5'
29985 3' -58.5 NC_006273.1 + 61426 0.66 0.888376
Target:  5'- --gCCcGGCUGCGCcucgaacucuaccaGGCCCUcGGGCa -3'
miRNA:   3'- gaaGGuCUGACGUG--------------CCGGGGuUCCGc -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.