miRNA display CGI


Results 1 - 20 of 36 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
7275 5' -55.3 NC_001900.1 + 7959 0.73 0.324369
Target:  5'- uCCGCGGCCGgUGgccgcaUCGAGGcgCAACCu- -3'
miRNA:   3'- -GGUGCCGGCgAC------AGUUCCa-GUUGGuc -5'
7275 5' -55.3 NC_001900.1 + 863 0.73 0.301147
Target:  5'- gCCACGGUCGCgaucagcucgaUGggCAuccgcuccucgaAGGUCGACCAGg -3'
miRNA:   3'- -GGUGCCGGCG-----------ACa-GU------------UCCAGUUGGUC- -5'
7275 5' -55.3 NC_001900.1 + 6337 1.1 0.000829
Target:  5'- gCCACGGCCGCUGUCAAGGUCAACCAGc -3'
miRNA:   3'- -GGUGCCGGCGACAGUUCCAGUUGGUC- -5'
7275 5' -55.3 NC_001900.1 + 15111 0.68 0.586224
Target:  5'- gCCAcCGGCUG--GUCGAGcGUCGGCCAc -3'
miRNA:   3'- -GGU-GCCGGCgaCAGUUC-CAGUUGGUc -5'
7275 5' -55.3 NC_001900.1 + 46242 0.68 0.542745
Target:  5'- gUCACgGGUgGCaGUCAAGGUgAACaCAGg -3'
miRNA:   3'- -GGUG-CCGgCGaCAGUUCCAgUUG-GUC- -5'
7275 5' -55.3 NC_001900.1 + 25494 0.69 0.47669
Target:  5'- cCCACGGCCcggaggucguggauGCggagGUCc-GGUCGACCGa -3'
miRNA:   3'- -GGUGCCGG--------------CGa---CAGuuCCAGUUGGUc -5'
7275 5' -55.3 NC_001900.1 + 43277 0.66 0.717889
Target:  5'- gCGUGGCCGauguguagGUCgGAGGUgAACCAGa -3'
miRNA:   3'- gGUGCCGGCga------CAG-UUCCAgUUGGUC- -5'
7275 5' -55.3 NC_001900.1 + 39723 0.66 0.707124
Target:  5'- gCGCGaugagaucaGCCGCcagcUCcGGGUCAGCCAGc -3'
miRNA:   3'- gGUGC---------CGGCGac--AGuUCCAGUUGGUC- -5'
7275 5' -55.3 NC_001900.1 + 38110 0.66 0.685381
Target:  5'- gCCuCGGCguugCGC-GUC-AGGUCGACCAc -3'
miRNA:   3'- -GGuGCCG----GCGaCAGuUCCAGUUGGUc -5'
7275 5' -55.3 NC_001900.1 + 30570 0.67 0.652409
Target:  5'- uCCG-GGUgGUacagGUCGAuGGUCGACCAGa -3'
miRNA:   3'- -GGUgCCGgCGa---CAGUU-CCAGUUGGUC- -5'
7275 5' -55.3 NC_001900.1 + 16528 0.68 0.564374
Target:  5'- gCACGGaUCuCcGUCAAGGUCAGCCc- -3'
miRNA:   3'- gGUGCC-GGcGaCAGUUCCAGUUGGuc -5'
7275 5' -55.3 NC_001900.1 + 32048 0.71 0.392641
Target:  5'- -aGCGGCCGUUGgCGAGGUUGACg-- -3'
miRNA:   3'- ggUGCCGGCGACaGUUCCAGUUGguc -5'
7275 5' -55.3 NC_001900.1 + 4110 0.66 0.685381
Target:  5'- aCCGCuGCCGCUGgCAGuuGGUucaucugcCGACCGGc -3'
miRNA:   3'- -GGUGcCGGCGACaGUU--CCA--------GUUGGUC- -5'
7275 5' -55.3 NC_001900.1 + 19572 0.71 0.420543
Target:  5'- cCCAaGGagaCGCUGcggaUCAAGGUCGGCCGc -3'
miRNA:   3'- -GGUgCCg--GCGAC----AGUUCCAGUUGGUc -5'
7275 5' -55.3 NC_001900.1 + 37591 0.67 0.629211
Target:  5'- cCCACaGgCGCUcguuguaGUCGGGGUaccgCGACCAGa -3'
miRNA:   3'- -GGUGcCgGCGA-------CAGUUCCA----GUUGGUC- -5'
7275 5' -55.3 NC_001900.1 + 47454 0.66 0.685381
Target:  5'- cCCuuCGGUgGCUGUCAA-GUCAGCgGa -3'
miRNA:   3'- -GGu-GCCGgCGACAGUUcCAGUUGgUc -5'
7275 5' -55.3 NC_001900.1 + 2260 0.7 0.459542
Target:  5'- -gACGGCCag-GUCGAGGUCAGCg-- -3'
miRNA:   3'- ggUGCCGGcgaCAGUUCCAGUUGguc -5'
7275 5' -55.3 NC_001900.1 + 32844 0.73 0.308742
Target:  5'- cCCcCGGUgGCUGUCAAGcGUgGAUCAGc -3'
miRNA:   3'- -GGuGCCGgCGACAGUUC-CAgUUGGUC- -5'
7275 5' -55.3 NC_001900.1 + 41163 0.71 0.392641
Target:  5'- uCCACGGCCGC-----AGGUCA-CCGGc -3'
miRNA:   3'- -GGUGCCGGCGacaguUCCAGUuGGUC- -5'
7275 5' -55.3 NC_001900.1 + 40381 0.71 0.420543
Target:  5'- aCCACGGCCGCagcgGcUCAcuGcCGACCGGc -3'
miRNA:   3'- -GGUGCCGGCGa---C-AGUucCaGUUGGUC- -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.