miRNA display CGI


Results 1 - 19 of 19 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
7211 5' -57.2 NC_001900.1 + 8172 0.66 0.59777
Target:  5'- cCGGCACcgagacggucGCCGAGAAGGc-GUaCGUCGa -3'
miRNA:   3'- -GCCGUGc---------CGGUUCUUCCucCA-GCAGC- -5'
7211 5' -57.2 NC_001900.1 + 15293 0.66 0.586957
Target:  5'- aCGGUuCGGCCGAGAcgccgAGGAcaUCGUgGa -3'
miRNA:   3'- -GCCGuGCCGGUUCU-----UCCUccAGCAgC- -5'
7211 5' -57.2 NC_001900.1 + 19809 0.66 0.576181
Target:  5'- uGGaagaaGCCAAGAGGGuGGcUCGUCGc -3'
miRNA:   3'- gCCgugc-CGGUUCUUCCuCC-AGCAGC- -5'
7211 5' -57.2 NC_001900.1 + 5596 0.67 0.554771
Target:  5'- uGGC-CGGCCGAuccauGAcgcGGGGGUgGUCa -3'
miRNA:   3'- gCCGuGCCGGUU-----CUu--CCUCCAgCAGc -5'
7211 5' -57.2 NC_001900.1 + 21166 0.67 0.550517
Target:  5'- aCGGCAgCGGCCcAGcgaucggacugugaAAGGAGcaagguuggugcaGUCGUCGu -3'
miRNA:   3'- -GCCGU-GCCGGuUC--------------UUCCUC-------------CAGCAGC- -5'
7211 5' -57.2 NC_001900.1 + 15828 0.67 0.544153
Target:  5'- uGGUcgaGGCCGucAAGGAGGUCGagGa -3'
miRNA:   3'- gCCGug-CCGGUucUUCCUCCAGCagC- -5'
7211 5' -57.2 NC_001900.1 + 12302 0.67 0.512727
Target:  5'- uCGGUcgACGGCCAcGucuGGGAGGUCu--- -3'
miRNA:   3'- -GCCG--UGCCGGUuCu--UCCUCCAGcagc -5'
7211 5' -57.2 NC_001900.1 + 12687 0.68 0.466089
Target:  5'- gGGCuCGGCCAAGGccagggaucucuuccAGGAGcGcagccacuacUCGUCGg -3'
miRNA:   3'- gCCGuGCCGGUUCU---------------UCCUC-C----------AGCAGC- -5'
7211 5' -57.2 NC_001900.1 + 13419 0.68 0.462136
Target:  5'- uGGCGCugguuccgGGgCAAGAAGGGcGUCGUUGu -3'
miRNA:   3'- gCCGUG--------CCgGUUCUUCCUcCAGCAGC- -5'
7211 5' -57.2 NC_001900.1 + 30808 0.68 0.452333
Target:  5'- -aGCAcCGGUCGAGcaccuGGAGGUCGUaCGa -3'
miRNA:   3'- gcCGU-GCCGGUUCuu---CCUCCAGCA-GC- -5'
7211 5' -57.2 NC_001900.1 + 25489 0.68 0.452333
Target:  5'- uGGCucccACGGCCcGGAGgucguggaugcGGAGGUCcgGUCGa -3'
miRNA:   3'- gCCG----UGCCGGuUCUU-----------CCUCCAG--CAGC- -5'
7211 5' -57.2 NC_001900.1 + 20971 0.69 0.433072
Target:  5'- uGGCuggagACGGCCAGgucGAAGG-GGUCGaCGu -3'
miRNA:   3'- gCCG-----UGCCGGUU---CUUCCuCCAGCaGC- -5'
7211 5' -57.2 NC_001900.1 + 8070 0.7 0.384441
Target:  5'- aCGGCAaGGCCAAcGAAGGccacgcgauggccgAGGUCaUCGa -3'
miRNA:   3'- -GCCGUgCCGGUU-CUUCC--------------UCCAGcAGC- -5'
7211 5' -57.2 NC_001900.1 + 17692 0.71 0.320533
Target:  5'- gCGGCGCauGGCgAuugaccugauGAAGGAGGUCGcCGa -3'
miRNA:   3'- -GCCGUG--CCGgUu---------CUUCCUCCAGCaGC- -5'
7211 5' -57.2 NC_001900.1 + 8420 0.71 0.305291
Target:  5'- uGGCACGG-CAAGAAGGcuGG-CGUCc -3'
miRNA:   3'- gCCGUGCCgGUUCUUCCu-CCaGCAGc -5'
7211 5' -57.2 NC_001900.1 + 6747 0.72 0.290611
Target:  5'- uGGCcguCGGUCGAGAAGGGuGUCGcCGa -3'
miRNA:   3'- gCCGu--GCCGGUUCUUCCUcCAGCaGC- -5'
7211 5' -57.2 NC_001900.1 + 23326 0.73 0.243591
Target:  5'- gGGCGCGGCCcgcgucggcGAGAAGaucGUCGUCGg -3'
miRNA:   3'- gCCGUGCCGG---------UUCUUCcucCAGCAGC- -5'
7211 5' -57.2 NC_001900.1 + 3644 0.75 0.168531
Target:  5'- cCGGCAUGGCCGGuGGAGGcuucAGGUaCGUCc -3'
miRNA:   3'- -GCCGUGCCGGUU-CUUCC----UCCA-GCAGc -5'
7211 5' -57.2 NC_001900.1 + 17853 1.1 0.00053
Target:  5'- aCGGCACGGCCAAGAAGGAGGUCGUCGg -3'
miRNA:   3'- -GCCGUGCCGGUUCUUCCUCCAGCAGC- -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.