miRNA display CGI


Results 1 - 20 of 67 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
23655 3' -56.9 NC_005261.1 + 58289 0.66 0.850565
Target:  5'- gGCCGGCGcGCCGGGgggcGCgGGGAGGgggCg -3'
miRNA:   3'- -CGGUUGU-UGGUCC----CGgUCCUCCacaG- -5'
23655 3' -56.9 NC_005261.1 + 8 0.66 0.849768
Target:  5'- cGCCccuCGugCAgcGGGCCccgcgcgaccccgGGGGGGUGUUu -3'
miRNA:   3'- -CGGuu-GUugGU--CCCGG-------------UCCUCCACAG- -5'
23655 3' -56.9 NC_005261.1 + 27368 0.66 0.842506
Target:  5'- aCCGGCGcgagGCCGGuGGgCAGGGGGUa-- -3'
miRNA:   3'- cGGUUGU----UGGUC-CCgGUCCUCCAcag -5'
23655 3' -56.9 NC_005261.1 + 137692 0.66 0.842506
Target:  5'- cGCCccuCGugCAgcGGGCCccgcgcgaccccGGGGGGUGUUu -3'
miRNA:   3'- -CGGuu-GUugGU--CCCGG------------UCCUCCACAG- -5'
23655 3' -56.9 NC_005261.1 + 74032 0.66 0.842506
Target:  5'- cCCAGCAagauggACCAGcGcGCCGGGGGGcUG-Cg -3'
miRNA:   3'- cGGUUGU------UGGUC-C-CGGUCCUCC-ACaG- -5'
23655 3' -56.9 NC_005261.1 + 64983 0.66 0.842506
Target:  5'- cGCCGcagcGCGugCAGGugcuCCAGGAGGUc-- -3'
miRNA:   3'- -CGGU----UGUugGUCCc---GGUCCUCCAcag -5'
23655 3' -56.9 NC_005261.1 + 43000 0.66 0.834253
Target:  5'- gGCU-AC-ACCgAGGGCCAGGGcGUGUa -3'
miRNA:   3'- -CGGuUGuUGG-UCCCGGUCCUcCACAg -5'
23655 3' -56.9 NC_005261.1 + 111450 0.66 0.825814
Target:  5'- aCCGGCgAGCCGGGcGCCGGcGAGGc--- -3'
miRNA:   3'- cGGUUG-UUGGUCC-CGGUC-CUCCacag -5'
23655 3' -56.9 NC_005261.1 + 52983 0.66 0.825814
Target:  5'- cGCCGGCAGgCGGGGgCGGcGcccAGGcGUCg -3'
miRNA:   3'- -CGGUUGUUgGUCCCgGUC-C---UCCaCAG- -5'
23655 3' -56.9 NC_005261.1 + 31546 0.66 0.825814
Target:  5'- cGCCGACucgcacGCCuGGGCCGGGuccuGGa--- -3'
miRNA:   3'- -CGGUUGu-----UGGuCCCGGUCCu---CCacag -5'
23655 3' -56.9 NC_005261.1 + 28245 0.66 0.825814
Target:  5'- cGCgCGAUAGCgGGGGCUgcucgGGGGGGcgcUGUUg -3'
miRNA:   3'- -CG-GUUGUUGgUCCCGG-----UCCUCC---ACAG- -5'
23655 3' -56.9 NC_005261.1 + 1279 0.66 0.817196
Target:  5'- uGCCGGCGcCCA-GGCCGGcGGGGcucccGUCg -3'
miRNA:   3'- -CGGUUGUuGGUcCCGGUC-CUCCa----CAG- -5'
23655 3' -56.9 NC_005261.1 + 109110 0.67 0.808407
Target:  5'- cGCCGGCcAUgAGGGC--GGcGGUGUCg -3'
miRNA:   3'- -CGGUUGuUGgUCCCGguCCuCCACAG- -5'
23655 3' -56.9 NC_005261.1 + 29001 0.67 0.808407
Target:  5'- cGCCGACu-CCGGGGCCGaugccaaagacGcGAGG-GUUg -3'
miRNA:   3'- -CGGUUGuuGGUCCCGGU-----------C-CUCCaCAG- -5'
23655 3' -56.9 NC_005261.1 + 107409 0.67 0.808407
Target:  5'- cCCGGCcGCCAGGGCCGaGAGcuucGUCc -3'
miRNA:   3'- cGGUUGuUGGUCCCGGUcCUCca--CAG- -5'
23655 3' -56.9 NC_005261.1 + 97350 0.67 0.808407
Target:  5'- aGCCAAUGACCguGGGGUCuacggcccGGGcGUGUCg -3'
miRNA:   3'- -CGGUUGUUGG--UCCCGGu-------CCUcCACAG- -5'
23655 3' -56.9 NC_005261.1 + 101732 0.67 0.807519
Target:  5'- cGCCcGCGAUCAGGGCCucgcucGGcagcuccAGGUG-Ca -3'
miRNA:   3'- -CGGuUGUUGGUCCCGGu-----CC-------UCCACaG- -5'
23655 3' -56.9 NC_005261.1 + 38595 0.67 0.799456
Target:  5'- uGCUGGCGGCCcGcGGCUGGcGGGUGUUg -3'
miRNA:   3'- -CGGUUGUUGGuC-CCGGUCcUCCACAG- -5'
23655 3' -56.9 NC_005261.1 + 98676 0.67 0.799456
Target:  5'- gGCgGGCuccGCCGGGGCC-GGAGGc--- -3'
miRNA:   3'- -CGgUUGu--UGGUCCCGGuCCUCCacag -5'
23655 3' -56.9 NC_005261.1 + 53437 0.67 0.790352
Target:  5'- cGCCAGCccgUCGGGcGUCGGGAGGUcGcCg -3'
miRNA:   3'- -CGGUUGuu-GGUCC-CGGUCCUCCA-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.