miRNA display CGI


Results 21 - 40 of 42 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
12409 3' -58.2 NC_003324.1 + 48821 0.7 0.35634
Target:  5'- uGAUGGccUGcAGCCuGCUGGCGCCGacGCGg -3'
miRNA:   3'- gCUACU--ACuUCGG-CGGCUGCGGC--CGC- -5'
12409 3' -58.2 NC_003324.1 + 53562 0.7 0.36464
Target:  5'- uCGAUcaGAaGAAgGCCGCCuGAUGCCGGUc -3'
miRNA:   3'- -GCUA--CUaCUU-CGGCGG-CUGCGGCCGc -5'
12409 3' -58.2 NC_003324.1 + 19581 0.7 0.373074
Target:  5'- cCGcgGcaaGAAGCaCGCCGACGCCGaCGc -3'
miRNA:   3'- -GCuaCua-CUUCG-GCGGCUGCGGCcGC- -5'
12409 3' -58.2 NC_003324.1 + 31319 0.7 0.373074
Target:  5'- ----aGUGcGGCCGgCGGCGCUGGCGc -3'
miRNA:   3'- gcuacUACuUCGGCgGCUGCGGCCGC- -5'
12409 3' -58.2 NC_003324.1 + 48714 0.69 0.399156
Target:  5'- cCGAUGAUGuugcGGCggaGCCgGAUGCgGGCGc -3'
miRNA:   3'- -GCUACUACu---UCGg--CGG-CUGCGgCCGC- -5'
12409 3' -58.2 NC_003324.1 + 38087 0.69 0.399156
Target:  5'- --cUGgcGAAGCgCGUCGGCGCCGuGCu -3'
miRNA:   3'- gcuACuaCUUCG-GCGGCUGCGGC-CGc -5'
12409 3' -58.2 NC_003324.1 + 50375 0.69 0.426376
Target:  5'- -uAUGGUGAAcGCCuucuuGCCGuCGaCCGGCGg -3'
miRNA:   3'- gcUACUACUU-CGG-----CGGCuGC-GGCCGC- -5'
12409 3' -58.2 NC_003324.1 + 47711 0.69 0.435692
Target:  5'- aCGAUGgcGGcccGGUCGCCGucAUGCgCGGCGu -3'
miRNA:   3'- -GCUACuaCU---UCGGCGGC--UGCG-GCCGC- -5'
12409 3' -58.2 NC_003324.1 + 4493 0.68 0.464324
Target:  5'- ---cGAUGAAGUcuuCGuuGAUGCCGcGCGa -3'
miRNA:   3'- gcuaCUACUUCG---GCggCUGCGGC-CGC- -5'
12409 3' -58.2 NC_003324.1 + 47771 0.68 0.478018
Target:  5'- uCGAgGAggccgcGAAGCgCGCCGACGgaacuguccagcgcaCCGGCGu -3'
miRNA:   3'- -GCUaCUa-----CUUCG-GCGGCUGC---------------GGCCGC- -5'
12409 3' -58.2 NC_003324.1 + 20353 0.68 0.483948
Target:  5'- gCGGUGGcccgcUGAGcCCGUaUGACGCCGGCu -3'
miRNA:   3'- -GCUACU-----ACUUcGGCG-GCUGCGGCCGc -5'
12409 3' -58.2 NC_003324.1 + 14549 0.67 0.50396
Target:  5'- gCGAcGGUGccagcaAGGuCCGCCGAugcuuggaCGCCGGCa -3'
miRNA:   3'- -GCUaCUAC------UUC-GGCGGCU--------GCGGCCGc -5'
12409 3' -58.2 NC_003324.1 + 52296 0.67 0.5141
Target:  5'- cCGAUuc-GggGCgGCCGGCGUCuGCGa -3'
miRNA:   3'- -GCUAcuaCuuCGgCGGCUGCGGcCGC- -5'
12409 3' -58.2 NC_003324.1 + 22202 0.67 0.542912
Target:  5'- aCGGUGAUGuuggugggcuuGCCGCCG-CGCaccuucgggagCGGCa -3'
miRNA:   3'- -GCUACUACuu---------CGGCGGCuGCG-----------GCCGc -5'
12409 3' -58.2 NC_003324.1 + 50275 0.67 0.544991
Target:  5'- aGaAUGAUGc-GCCGCCGGuCGaCGGCa -3'
miRNA:   3'- gC-UACUACuuCGGCGGCU-GCgGCCGc -5'
12409 3' -58.2 NC_003324.1 + 42294 0.66 0.565916
Target:  5'- aCGcUGAgugcGCCGCCugccacgugccgGGCGCCGGUGa -3'
miRNA:   3'- -GCuACUacuuCGGCGG------------CUGCGGCCGC- -5'
12409 3' -58.2 NC_003324.1 + 39267 0.66 0.576458
Target:  5'- -uAUGAUcGGuuGCCGCCGugGCUGcGCc -3'
miRNA:   3'- gcUACUA-CUu-CGGCGGCugCGGC-CGc -5'
12409 3' -58.2 NC_003324.1 + 14420 0.66 0.576458
Target:  5'- uCGAUGggGAucacgcccGGCucuggCGCCcAUGCCGGCGu -3'
miRNA:   3'- -GCUACuaCU--------UCG-----GCGGcUGCGGCCGC- -5'
12409 3' -58.2 NC_003324.1 + 56298 0.66 0.576458
Target:  5'- ---gGAUGucGCCGCCGAUcgaGCgauaGGCGa -3'
miRNA:   3'- gcuaCUACuuCGGCGGCUG---CGg---CCGC- -5'
12409 3' -58.2 NC_003324.1 + 18848 0.66 0.597663
Target:  5'- aGAUcGA-GGAGCUGCuCGugGgcuCCGGCGu -3'
miRNA:   3'- gCUA-CUaCUUCGGCG-GCugC---GGCCGC- -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.