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
13152 3' -59.6 NC_003401.1 + 126023 0.66 0.708442
Target:  5'- uGGGGGCCCAGCUU-CAcgCCCGCg- -3'
miRNA:   3'- cCUCCUGGGUCGGAcGUcaGGGUGac -5'
13152 3' -59.6 NC_003401.1 + 126780 0.66 0.708442
Target:  5'- cGGAGGACgaCCAGgccuggcuCCUGCAG-CacaCACUGu -3'
miRNA:   3'- -CCUCCUG--GGUC--------GGACGUCaGg--GUGAC- -5'
13152 3' -59.6 NC_003401.1 + 66666 0.66 0.688563
Target:  5'- uGAGGAUUCagcuuagguGGCCUGCAGgCUUGCUGa -3'
miRNA:   3'- cCUCCUGGG---------UCGGACGUCaGGGUGAC- -5'
13152 3' -59.6 NC_003401.1 + 117830 0.66 0.687564
Target:  5'- aGGGGGAUUaggGGCCgccgGCAGggacguuUCCCAUUGg -3'
miRNA:   3'- -CCUCCUGGg--UCGGa---CGUC-------AGGGUGAC- -5'
13152 3' -59.6 NC_003401.1 + 120386 0.67 0.678551
Target:  5'- -cAGGGCCCA-CCagGCGGaugcuagcguuuUCCCACUGg -3'
miRNA:   3'- ccUCCUGGGUcGGa-CGUC------------AGGGUGAC- -5'
13152 3' -59.6 NC_003401.1 + 120372 0.67 0.667495
Target:  5'- aGAGGGCCCGGuCCUgguacaggacgggGUcaauGGUCCCGgUGg -3'
miRNA:   3'- cCUCCUGGGUC-GGA-------------CG----UCAGGGUgAC- -5'
13152 3' -59.6 NC_003401.1 + 30830 0.67 0.638212
Target:  5'- aGGAGGcacaGCgCGGCCUGCGuGUCCgAUa- -3'
miRNA:   3'- -CCUCC----UGgGUCGGACGU-CAGGgUGac -5'
13152 3' -59.6 NC_003401.1 + 101 0.68 0.617983
Target:  5'- aGGGGACaguaGGCCUGCuugCUCGCUGg -3'
miRNA:   3'- cCUCCUGgg--UCGGACGucaGGGUGAC- -5'
13152 3' -59.6 NC_003401.1 + 132900 0.68 0.617983
Target:  5'- aGGGGACaguaGGCCUGCuugCUCGCUGg -3'
miRNA:   3'- cCUCCUGgg--UCGGACGucaGGGUGAC- -5'
13152 3' -59.6 NC_003401.1 + 132836 0.68 0.617983
Target:  5'- aGGGGACaguaGGCCUGCuugCUCGCUGg -3'
miRNA:   3'- cCUCCUGgg--UCGGACGucaGGGUGAC- -5'
13152 3' -59.6 NC_003401.1 + 165 0.68 0.617983
Target:  5'- aGGGGACaguaGGCCUGCuugCUCGCUGg -3'
miRNA:   3'- cCUCCUGgg--UCGGACGucaGGGUGAC- -5'
13152 3' -59.6 NC_003401.1 + 96759 0.68 0.597796
Target:  5'- uGGAGGACCCAGUgU-CAGUCUguUUa -3'
miRNA:   3'- -CCUCCUGGGUCGgAcGUCAGGguGAc -5'
13152 3' -59.6 NC_003401.1 + 9049 0.68 0.567715
Target:  5'- aGGGGGAgcuuUCCGGCCacagguUGCGGUCCaCGCc- -3'
miRNA:   3'- -CCUCCU----GGGUCGG------ACGUCAGG-GUGac -5'
13152 3' -59.6 NC_003401.1 + 90584 0.69 0.538032
Target:  5'- uGGGGGugUguGCCUGCGGaaaCCUuCUGa -3'
miRNA:   3'- -CCUCCugGguCGGACGUCa--GGGuGAC- -5'
13152 3' -59.6 NC_003401.1 + 12404 0.76 0.215972
Target:  5'- cGGAGGACCCcaAGUCgGCGGUCUgcgCGCUGa -3'
miRNA:   3'- -CCUCCUGGG--UCGGaCGUCAGG---GUGAC- -5'
13152 3' -59.6 NC_003401.1 + 116889 1.1 0.000941
Target:  5'- gGGAGGACCCAGCCUGCAGUCCCACUGa -3'
miRNA:   3'- -CCUCCUGGGUCGGACGUCAGGGUGAC- -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.