miRNA display CGI


Results 1 - 20 of 49 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
18852 3' -56.6 NC_004683.1 + 43482 0.66 0.685127
Target:  5'- aGCCuGCCCucguGGGgGCuGccgCGACCGCa -3'
miRNA:   3'- -CGG-CGGGu---UCCaCGuCaa-GCUGGUGc -5'
18852 3' -56.6 NC_004683.1 + 51690 0.66 0.678683
Target:  5'- cGCCGCgguUCGAGGcagccgagcaggcccUGCAGgagugcuaCGGCCGCGa -3'
miRNA:   3'- -CGGCG---GGUUCC---------------ACGUCaa------GCUGGUGC- -5'
18852 3' -56.6 NC_004683.1 + 8366 0.66 0.674379
Target:  5'- --gGCCCAgucgGGGUGCA--UCGGCCGgGc -3'
miRNA:   3'- cggCGGGU----UCCACGUcaAGCUGGUgC- -5'
18852 3' -56.6 NC_004683.1 + 41321 0.66 0.674379
Target:  5'- cCCGCCCAGGcUGaCGGcgUCGACgAUGc -3'
miRNA:   3'- cGGCGGGUUCcAC-GUCa-AGCUGgUGC- -5'
18852 3' -56.6 NC_004683.1 + 42244 0.66 0.674379
Target:  5'- gGCCgcGCCCucGG-GCAG--CGACCACu -3'
miRNA:   3'- -CGG--CGGGuuCCaCGUCaaGCUGGUGc -5'
18852 3' -56.6 NC_004683.1 + 31402 0.66 0.663592
Target:  5'- gGCCGCC----GUGCcGUUgcCGACCGCGg -3'
miRNA:   3'- -CGGCGGguucCACGuCAA--GCUGGUGC- -5'
18852 3' -56.6 NC_004683.1 + 47837 0.66 0.663592
Target:  5'- uCCGgCUugAAGGU-CAGUUCGGCgGCGg -3'
miRNA:   3'- cGGCgGG--UUCCAcGUCAAGCUGgUGC- -5'
18852 3' -56.6 NC_004683.1 + 20053 0.66 0.652777
Target:  5'- aCCGCCgGGGcGaugGCGGauucUCGACCACa -3'
miRNA:   3'- cGGCGGgUUC-Ca--CGUCa---AGCUGGUGc -5'
18852 3' -56.6 NC_004683.1 + 619 0.66 0.641943
Target:  5'- uGCUGUCguGGGUgaGCAGcccgUCGAgCACGg -3'
miRNA:   3'- -CGGCGGguUCCA--CGUCa---AGCUgGUGC- -5'
18852 3' -56.6 NC_004683.1 + 47359 0.66 0.631101
Target:  5'- gGCCGCgaCAAGGgcaUGCAGgUUuACCACGu -3'
miRNA:   3'- -CGGCGg-GUUCC---ACGUCaAGcUGGUGC- -5'
18852 3' -56.6 NC_004683.1 + 36571 0.66 0.631101
Target:  5'- gGCCGCCCcGGGUGCGc--CG-CCAg- -3'
miRNA:   3'- -CGGCGGGuUCCACGUcaaGCuGGUgc -5'
18852 3' -56.6 NC_004683.1 + 32173 0.66 0.631101
Target:  5'- cGCCGCCgucgccgaaGAGGUGC---UCGAgCGCGu -3'
miRNA:   3'- -CGGCGGg--------UUCCACGucaAGCUgGUGC- -5'
18852 3' -56.6 NC_004683.1 + 3387 0.66 0.631101
Target:  5'- cGCgGCCgGcGGUGCGGccggcgUCuGCCGCGg -3'
miRNA:   3'- -CGgCGGgUuCCACGUCa-----AGcUGGUGC- -5'
18852 3' -56.6 NC_004683.1 + 49060 0.66 0.631101
Target:  5'- -gCGCCCGaauGGGUcaccgcgccGCGGguuuUCGACUACGg -3'
miRNA:   3'- cgGCGGGU---UCCA---------CGUCa---AGCUGGUGC- -5'
18852 3' -56.6 NC_004683.1 + 12476 0.67 0.609428
Target:  5'- gGCUGUCCGAGGcgcaGCAGggC-ACCugGa -3'
miRNA:   3'- -CGGCGGGUUCCa---CGUCaaGcUGGugC- -5'
18852 3' -56.6 NC_004683.1 + 20428 0.67 0.598616
Target:  5'- gGCgGCaCCGGcGGUGCAGg--GGCCACc -3'
miRNA:   3'- -CGgCG-GGUU-CCACGUCaagCUGGUGc -5'
18852 3' -56.6 NC_004683.1 + 9403 0.67 0.596456
Target:  5'- aGCCGUCgCAGGGgacGCcccauucggCGACCACGg -3'
miRNA:   3'- -CGGCGG-GUUCCa--CGucaa-----GCUGGUGC- -5'
18852 3' -56.6 NC_004683.1 + 31522 0.67 0.587831
Target:  5'- gGCCGa-CAuGGUGuCGGcgUCGGCCACGc -3'
miRNA:   3'- -CGGCggGUuCCAC-GUCa-AGCUGGUGC- -5'
18852 3' -56.6 NC_004683.1 + 15893 0.67 0.577083
Target:  5'- aGCuCGCCCGAa-UGCAGgaCGACCuCGa -3'
miRNA:   3'- -CG-GCGGGUUccACGUCaaGCUGGuGC- -5'
18852 3' -56.6 NC_004683.1 + 52699 0.68 0.566378
Target:  5'- aGCCGUCCAAGGU-CAaucaccUUgGACCGCa -3'
miRNA:   3'- -CGGCGGGUUCCAcGUc-----AAgCUGGUGc -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.