miRNA display CGI


Results 1 - 12 of 12 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
20992 3' -52.5 NC_004735.1 + 129892 0.66 0.975704
Target:  5'- aCCA--CCGUACGgcuGGCGGUccgucGGugGGACg -3'
miRNA:   3'- -GGUuaGGCGUGC---UCGCCG-----UCugUUUG- -5'
20992 3' -52.5 NC_004735.1 + 11718 0.66 0.966967
Target:  5'- cCCAAUuuGCAgGAuGCaGCGGAaAAGCu -3'
miRNA:   3'- -GGUUAggCGUgCU-CGcCGUCUgUUUG- -5'
20992 3' -52.5 NC_004735.1 + 45264 0.66 0.966967
Target:  5'- gCCuuUUCGCugGAgggaGCGGCGGGuucuuucauacCGAGCa -3'
miRNA:   3'- -GGuuAGGCGugCU----CGCCGUCU-----------GUUUG- -5'
20992 3' -52.5 NC_004735.1 + 59572 0.67 0.960032
Target:  5'- uCCAGUUCGggaACGuGUGGUgcaAGAUAAACg -3'
miRNA:   3'- -GGUUAGGCg--UGCuCGCCG---UCUGUUUG- -5'
20992 3' -52.5 NC_004735.1 + 15938 0.68 0.933431
Target:  5'- uCCAAUCCggagguGCGCGuGGUGGCGGAg---- -3'
miRNA:   3'- -GGUUAGG------CGUGC-UCGCCGUCUguuug -5'
20992 3' -52.5 NC_004735.1 + 15569 0.68 0.930274
Target:  5'- -gGcgCCGCuucugacgccuugaaGCGAGCGGCGGuCAAGu -3'
miRNA:   3'- ggUuaGGCG---------------UGCUCGCCGUCuGUUUg -5'
20992 3' -52.5 NC_004735.1 + 99441 0.68 0.930274
Target:  5'- -aGcgCCGaacaACGGGCGGCAuuugaauccuuuaucGACAGACu -3'
miRNA:   3'- ggUuaGGCg---UGCUCGCCGU---------------CUGUUUG- -5'
20992 3' -52.5 NC_004735.1 + 35566 0.68 0.928118
Target:  5'- -aGcgCCGCACGGuGCGGguGGCu--- -3'
miRNA:   3'- ggUuaGGCGUGCU-CGCCguCUGuuug -5'
20992 3' -52.5 NC_004735.1 + 58333 0.69 0.904316
Target:  5'- gCUuuUgCGCugGcGCGGCuGGCGAACa -3'
miRNA:   3'- -GGuuAgGCGugCuCGCCGuCUGUUUG- -5'
20992 3' -52.5 NC_004735.1 + 15403 0.69 0.897736
Target:  5'- -gGAUCgGUugGAuGCGGUGGugGGACc -3'
miRNA:   3'- ggUUAGgCGugCU-CGCCGUCugUUUG- -5'
20992 3' -52.5 NC_004735.1 + 52957 0.71 0.828012
Target:  5'- aCCAuacgCCGCuuGAGCGGUgccAGAUGAAUa -3'
miRNA:   3'- -GGUua--GGCGugCUCGCCG---UCUGUUUG- -5'
20992 3' -52.5 NC_004735.1 + 45632 1.11 0.003632
Target:  5'- uCCAAUCCGCACGAGCGGCAGACAAACu -3'
miRNA:   3'- -GGUUAGGCGUGCUCGCCGUCUGUUUG- -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.