miRNA display CGI


Results 1 - 20 of 34 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
5230 3' -56.3 NC_001798.1 + 20360 0.66 0.901475
Target:  5'- cUGCCgGGCGGGUUcGG----GGCGGc -3'
miRNA:   3'- aAUGGaCCGCCCAGuCCacuaUCGCC- -5'
5230 3' -56.3 NC_001798.1 + 124499 0.66 0.894989
Target:  5'- -cGCCaUGGCGGGggGGGggcu-GCGGg -3'
miRNA:   3'- aaUGG-ACCGCCCagUCCacuauCGCC- -5'
5230 3' -56.3 NC_001798.1 + 101880 0.66 0.894989
Target:  5'- -gGCgUGuGCGGGggaGGGcUGAugUAGCGGg -3'
miRNA:   3'- aaUGgAC-CGCCCag-UCC-ACU--AUCGCC- -5'
5230 3' -56.3 NC_001798.1 + 30923 0.66 0.894989
Target:  5'- -gGCCgacggugagGGCggcggGGGUCGGGcgGggGGCGGg -3'
miRNA:   3'- aaUGGa--------CCG-----CCCAGUCCa-CuaUCGCC- -5'
5230 3' -56.3 NC_001798.1 + 88030 0.66 0.888273
Target:  5'- -cGCUUGGcCGGGgagggCAGGgccgcuggGggGGCGGg -3'
miRNA:   3'- aaUGGACC-GCCCa----GUCCa-------CuaUCGCC- -5'
5230 3' -56.3 NC_001798.1 + 149165 0.66 0.888273
Target:  5'- -cGCCUcGGCcgguGGUCcGGUGGggGGCGGc -3'
miRNA:   3'- aaUGGA-CCGc---CCAGuCCACUa-UCGCC- -5'
5230 3' -56.3 NC_001798.1 + 150841 0.66 0.881329
Target:  5'- -cGCCagggGGCGccGGUCGGGUcgcGGCGGg -3'
miRNA:   3'- aaUGGa---CCGC--CCAGUCCAcuaUCGCC- -5'
5230 3' -56.3 NC_001798.1 + 96027 0.66 0.881329
Target:  5'- -cACC-GGCGGGgCGGGcg--GGCGGg -3'
miRNA:   3'- aaUGGaCCGCCCaGUCCacuaUCGCC- -5'
5230 3' -56.3 NC_001798.1 + 15034 0.66 0.881329
Target:  5'- --uCCUGGCGGG--AGcGUGG-GGCGGa -3'
miRNA:   3'- aauGGACCGCCCagUC-CACUaUCGCC- -5'
5230 3' -56.3 NC_001798.1 + 28615 0.66 0.873434
Target:  5'- -cGCCUGGCccgacggGGGUCcuGGGcgcGcgAGCGGg -3'
miRNA:   3'- aaUGGACCG-------CCCAG--UCCa--CuaUCGCC- -5'
5230 3' -56.3 NC_001798.1 + 12335 0.67 0.859184
Target:  5'- aUACCgggaucGGaCGGGUCgAGGUGGcuGUGGg -3'
miRNA:   3'- aAUGGa-----CC-GCCCAG-UCCACUauCGCC- -5'
5230 3' -56.3 NC_001798.1 + 43183 0.67 0.851382
Target:  5'- -cGCCUGGCcGGUCGGGgacAUGGUa- -3'
miRNA:   3'- aaUGGACCGcCCAGUCCac-UAUCGcc -5'
5230 3' -56.3 NC_001798.1 + 27214 0.67 0.843379
Target:  5'- -aGCCcccggGGCGGGgcgCGGG-GGaGGCGGc -3'
miRNA:   3'- aaUGGa----CCGCCCa--GUCCaCUaUCGCC- -5'
5230 3' -56.3 NC_001798.1 + 2487 0.67 0.843379
Target:  5'- -gGCC-GGCGGGUCAGcGccgcgGGgcGCGGc -3'
miRNA:   3'- aaUGGaCCGCCCAGUC-Ca----CUauCGCC- -5'
5230 3' -56.3 NC_001798.1 + 74851 0.67 0.835185
Target:  5'- -gACCU-GCGGGUCcuggAGGUGggGGCa- -3'
miRNA:   3'- aaUGGAcCGCCCAG----UCCACuaUCGcc -5'
5230 3' -56.3 NC_001798.1 + 33276 0.67 0.826804
Target:  5'- --uCUUGGUGGGUgggCGGGcUGGcUGGCGGg -3'
miRNA:   3'- aauGGACCGCCCA---GUCC-ACU-AUCGCC- -5'
5230 3' -56.3 NC_001798.1 + 2458 0.68 0.809517
Target:  5'- -aGCCgcccuGCGGGUCGGGgcccucGGCGGg -3'
miRNA:   3'- aaUGGac---CGCCCAGUCCacua--UCGCC- -5'
5230 3' -56.3 NC_001798.1 + 144072 0.68 0.782396
Target:  5'- -cGCCUGGcCGGGau-GGUGGUA-CGGg -3'
miRNA:   3'- aaUGGACC-GCCCaguCCACUAUcGCC- -5'
5230 3' -56.3 NC_001798.1 + 4360 0.69 0.763623
Target:  5'- -cGCC-GGCGGGgggCGcgccggcggcGGUGGUGGUGGu -3'
miRNA:   3'- aaUGGaCCGCCCa--GU----------CCACUAUCGCC- -5'
5230 3' -56.3 NC_001798.1 + 29892 0.69 0.763623
Target:  5'- -cACCcGGCugcGGGUUggGGGUGGUcGCGGg -3'
miRNA:   3'- aaUGGaCCG---CCCAG--UCCACUAuCGCC- -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.