miRNA display CGI


Results 1 - 16 of 16 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
23492 3' -53.7 NC_005259.1 + 39355 0.66 0.85635
Target:  5'- aCGAcGUGCCgggccuCGUCGGgaacgucccaguUCGUCACGCu -3'
miRNA:   3'- cGUUaCACGG------GCAGCC------------AGUAGUGCGu -5'
23492 3' -53.7 NC_005259.1 + 65165 0.66 0.85635
Target:  5'- gGCcAUG-GCCCGcCgGGUCAagGCGCu -3'
miRNA:   3'- -CGuUACaCGGGCaG-CCAGUagUGCGu -5'
23492 3' -53.7 NC_005259.1 + 10250 0.66 0.847941
Target:  5'- gGCGGUGUGCuuGaugagcgggcCGGUC-UCAgGCAa -3'
miRNA:   3'- -CGUUACACGggCa---------GCCAGuAGUgCGU- -5'
23492 3' -53.7 NC_005259.1 + 20055 0.66 0.847941
Target:  5'- uGCGAUGUccGCUgCGguggCGGUCGUCAC-CAc -3'
miRNA:   3'- -CGUUACA--CGG-GCa---GCCAGUAGUGcGU- -5'
23492 3' -53.7 NC_005259.1 + 46845 0.67 0.821406
Target:  5'- gGCGAgcUGCCCGaguccgcugUCGGUCGaggcuugaaUCGCGCc -3'
miRNA:   3'- -CGUUacACGGGC---------AGCCAGU---------AGUGCGu -5'
23492 3' -53.7 NC_005259.1 + 8716 0.67 0.821406
Target:  5'- cGCGGUcaaGCgUGUCGGUCAugUCAgGCAg -3'
miRNA:   3'- -CGUUAca-CGgGCAGCCAGU--AGUgCGU- -5'
23492 3' -53.7 NC_005259.1 + 57634 0.67 0.802716
Target:  5'- aGCGgaaccAUGUGCCCGcCGGguaCAgcagCACGUc -3'
miRNA:   3'- -CGU-----UACACGGGCaGCCa--GUa---GUGCGu -5'
23492 3' -53.7 NC_005259.1 + 37293 0.67 0.783321
Target:  5'- uGCAuggcgGUGCCCGcCGgGUCAgcagacaGCGCGu -3'
miRNA:   3'- -CGUua---CACGGGCaGC-CAGUag-----UGCGU- -5'
23492 3' -53.7 NC_005259.1 + 3164 0.67 0.783321
Target:  5'- aCGGUGaUGCCCGgcgaugucaaGGUCGUCgguGCGCGc -3'
miRNA:   3'- cGUUAC-ACGGGCag--------CCAGUAG---UGCGU- -5'
23492 3' -53.7 NC_005259.1 + 26826 0.67 0.783321
Target:  5'- gGCGGUGgUGCCgGggCGGUCugcUCGgGCAg -3'
miRNA:   3'- -CGUUAC-ACGGgCa-GCCAGu--AGUgCGU- -5'
23492 3' -53.7 NC_005259.1 + 1030 0.68 0.742755
Target:  5'- gGCAAaacacUGUGCCgGguaCGGUCcgaguUCACGCu -3'
miRNA:   3'- -CGUU-----ACACGGgCa--GCCAGu----AGUGCGu -5'
23492 3' -53.7 NC_005259.1 + 412 0.68 0.721763
Target:  5'- aGCAGcgcGUGCCCGUCGaGg-AUgACGCAc -3'
miRNA:   3'- -CGUUa--CACGGGCAGC-CagUAgUGCGU- -5'
23492 3' -53.7 NC_005259.1 + 33745 0.69 0.697193
Target:  5'- aGCGGUGUGCacgagcacgaacacCCGcacgCGGUCAUCACu-- -3'
miRNA:   3'- -CGUUACACG--------------GGCa---GCCAGUAGUGcgu -5'
23492 3' -53.7 NC_005259.1 + 56084 0.69 0.667938
Target:  5'- aGCAGaucgGUGCUCGUCGGggcCAcCGCGUg -3'
miRNA:   3'- -CGUUa---CACGGGCAGCCa--GUaGUGCGu -5'
23492 3' -53.7 NC_005259.1 + 47771 0.7 0.657031
Target:  5'- cGCGAUG-GCCUuUUGGaaAUCGCGCAg -3'
miRNA:   3'- -CGUUACaCGGGcAGCCagUAGUGCGU- -5'
23492 3' -53.7 NC_005259.1 + 56918 0.7 0.624211
Target:  5'- aGCAGgcGUGCCCGcgUCGGUgAgCAUGCGg -3'
miRNA:   3'- -CGUUa-CACGGGC--AGCCAgUaGUGCGU- -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.