miRNA display CGI


Results 1 - 20 of 59 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
12996 3' -50.5 NC_003387.1 + 7522 0.66 0.927245
Target:  5'- gGCCGAgggugaacgAGAG-CGGCAcugcugcCGCCCUGGc -3'
miRNA:   3'- -CGGCU---------UUUCaGUCGUuu-----GCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 30010 0.66 0.927245
Target:  5'- cCCGAcuGGUCGGUAu-CGCCCa--- -3'
miRNA:   3'- cGGCUuuUCAGUCGUuuGCGGGacuc -5'
12996 3' -50.5 NC_003387.1 + 47007 0.66 0.921162
Target:  5'- uGCCG----GUCAGCGAcgacgcgggcACGCCCUuGAc -3'
miRNA:   3'- -CGGCuuuuCAGUCGUU----------UGCGGGA-CUc -5'
12996 3' -50.5 NC_003387.1 + 39296 0.66 0.921162
Target:  5'- uGCCGAGGuAGUucacacCGGCGAGCGCCg---- -3'
miRNA:   3'- -CGGCUUU-UCA------GUCGUUUGCGGgacuc -5'
12996 3' -50.5 NC_003387.1 + 18569 0.66 0.921162
Target:  5'- gGCCGAG-----GGC-GACGCCCUGGu -3'
miRNA:   3'- -CGGCUUuucagUCGuUUGCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 13406 0.66 0.908099
Target:  5'- gGCCGAcgguuAAGUCGGCGcuCGCCggugUGAa -3'
miRNA:   3'- -CGGCUu----UUCAGUCGUuuGCGGg---ACUc -5'
12996 3' -50.5 NC_003387.1 + 10094 0.66 0.908099
Target:  5'- gGUCGgcAAGUUcauGGCAAuGCGCgCUGAGc -3'
miRNA:   3'- -CGGCuuUUCAG---UCGUU-UGCGgGACUC- -5'
12996 3' -50.5 NC_003387.1 + 2578 0.66 0.908099
Target:  5'- cGCCGAcccGUCGGUcGACGCCUg--- -3'
miRNA:   3'- -CGGCUuuuCAGUCGuUUGCGGGacuc -5'
12996 3' -50.5 NC_003387.1 + 26433 0.66 0.901124
Target:  5'- aCCGAcGAG-CAGCucACGCCgUGGa -3'
miRNA:   3'- cGGCUuUUCaGUCGuuUGCGGgACUc -5'
12996 3' -50.5 NC_003387.1 + 38204 0.66 0.901124
Target:  5'- cGCCGAGuaccgCAcGCAGGCGCaCCUGu- -3'
miRNA:   3'- -CGGCUUuuca-GU-CGUUUGCG-GGACuc -5'
12996 3' -50.5 NC_003387.1 + 17780 0.66 0.901124
Target:  5'- gGCCGAAAcgauccccauGUCggAGCGcACGCCC-GAGa -3'
miRNA:   3'- -CGGCUUUu---------CAG--UCGUuUGCGGGaCUC- -5'
12996 3' -50.5 NC_003387.1 + 45379 0.66 0.901124
Target:  5'- uGCCGGc-GGUUAGCu-GCGCCCg--- -3'
miRNA:   3'- -CGGCUuuUCAGUCGuuUGCGGGacuc -5'
12996 3' -50.5 NC_003387.1 + 724 0.66 0.901124
Target:  5'- gGCCGAcAGGUCgGGCAGguGCGCCagGAu -3'
miRNA:   3'- -CGGCUuUUCAG-UCGUU--UGCGGgaCUc -5'
12996 3' -50.5 NC_003387.1 + 9412 0.67 0.896799
Target:  5'- cGCCGAGGAGUgGGCcgacgaguacgacgcGGGCGCCgaGc- -3'
miRNA:   3'- -CGGCUUUUCAgUCG---------------UUUGCGGgaCuc -5'
12996 3' -50.5 NC_003387.1 + 2752 0.67 0.893858
Target:  5'- uGuuGAGGuGUCAacaCAAACGCCCcGAGu -3'
miRNA:   3'- -CggCUUUuCAGUc--GUUUGCGGGaCUC- -5'
12996 3' -50.5 NC_003387.1 + 9671 0.67 0.893858
Target:  5'- gGCgGugcGGGGUCAGCu--CGCCCgucuUGAGg -3'
miRNA:   3'- -CGgCu--UUUCAGUCGuuuGCGGG----ACUC- -5'
12996 3' -50.5 NC_003387.1 + 28130 0.67 0.893858
Target:  5'- cGCCGA--GGcCcGCAAGCGCCCc--- -3'
miRNA:   3'- -CGGCUuuUCaGuCGUUUGCGGGacuc -5'
12996 3' -50.5 NC_003387.1 + 2168 0.67 0.893858
Target:  5'- aGCCGc-GAG-CAGCucGGCGCCUUGGu -3'
miRNA:   3'- -CGGCuuUUCaGUCGu-UUGCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 13893 0.67 0.893115
Target:  5'- cGCCGGGcagguucGAcGUCGGguGGCGCCCg--- -3'
miRNA:   3'- -CGGCUU-------UU-CAGUCguUUGCGGGacuc -5'
12996 3' -50.5 NC_003387.1 + 33680 0.67 0.886305
Target:  5'- aCCGGGAuGaUCGGCAGGCGgCCgGGGu -3'
miRNA:   3'- cGGCUUUuC-AGUCGUUUGCgGGaCUC- -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.