miRNA display CGI


Results 1 - 20 of 22 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
777 3' -49.2 NC_000852.3 + 31744 0.66 0.99997
Target:  5'- -cAGGUGGUuuuGGgGAAGGAGGUUuGGg -3'
miRNA:   3'- ucUUCGCCAu--CCgCUUCUUCUAGuUC- -5'
777 3' -49.2 NC_000852.3 + 188795 0.66 0.99997
Target:  5'- uGGGAGCGGguuuagGGGCGGGuuuAGGggCGGGu -3'
miRNA:   3'- -UCUUCGCCa-----UCCGCUUc--UUCuaGUUC- -5'
777 3' -49.2 NC_000852.3 + 116514 0.66 0.99996
Target:  5'- -aAAGuUGGUAuGGUGAGGAAGAUUguAAGg -3'
miRNA:   3'- ucUUC-GCCAU-CCGCUUCUUCUAG--UUC- -5'
777 3' -49.2 NC_000852.3 + 119558 0.66 0.99996
Target:  5'- cGucGCGGguucGaCGAAGAAGGUCGGGu -3'
miRNA:   3'- uCuuCGCCauc-C-GCUUCUUCUAGUUC- -5'
777 3' -49.2 NC_000852.3 + 31657 0.66 0.99996
Target:  5'- gGGAAGgaGGUuuuGGgGAAGGAGGUUuGGg -3'
miRNA:   3'- -UCUUCg-CCAu--CCgCUUCUUCUAGuUC- -5'
777 3' -49.2 NC_000852.3 + 31537 0.66 0.99996
Target:  5'- gGGAAGgaGGUuuuGGgGAAGGAGGUUuGGg -3'
miRNA:   3'- -UCUUCg-CCAu--CCgCUUCUUCUAGuUC- -5'
777 3' -49.2 NC_000852.3 + 277538 0.66 0.999947
Target:  5'- aAGAcAGCGGgugagauuGGCGAAGuuGAUCu-- -3'
miRNA:   3'- -UCU-UCGCCau------CCGCUUCuuCUAGuuc -5'
777 3' -49.2 NC_000852.3 + 106822 0.66 0.999932
Target:  5'- cGAGGCGGaaaaggaacguguuaAGGCGGAGAAGGc---- -3'
miRNA:   3'- uCUUCGCCa--------------UCCGCUUCUUCUaguuc -5'
777 3' -49.2 NC_000852.3 + 60 0.67 0.999883
Target:  5'- cGGAAGCGG--GGCuauauAGAAGAgcgCAAGa -3'
miRNA:   3'- -UCUUCGCCauCCGcu---UCUUCUa--GUUC- -5'
777 3' -49.2 NC_000852.3 + 330684 0.67 0.999883
Target:  5'- cGGAAGCGG--GGCuauauAGAAGAgcgCAAGa -3'
miRNA:   3'- -UCUUCGCCauCCGcu---UCUUCUa--GUUC- -5'
777 3' -49.2 NC_000852.3 + 32505 0.67 0.99985
Target:  5'- cAGGAGUGGgAGGUGggGGug--CAGGa -3'
miRNA:   3'- -UCUUCGCCaUCCGCuuCUucuaGUUC- -5'
777 3' -49.2 NC_000852.3 + 210487 0.67 0.99985
Target:  5'- -uGGGUGGU-GGCGGAGggGGUg--- -3'
miRNA:   3'- ucUUCGCCAuCCGCUUCuuCUAguuc -5'
777 3' -49.2 NC_000852.3 + 37854 0.67 0.999759
Target:  5'- --uGGgGGUAGGCucgGggGAGGGcUCGGGg -3'
miRNA:   3'- ucuUCgCCAUCCG---CuuCUUCU-AGUUC- -5'
777 3' -49.2 NC_000852.3 + 294889 0.67 0.999696
Target:  5'- uGGAGGUGGUaAGGUcauGAAGggGGUUc-- -3'
miRNA:   3'- -UCUUCGCCA-UCCG---CUUCuuCUAGuuc -5'
777 3' -49.2 NC_000852.3 + 158593 0.68 0.999529
Target:  5'- uAGggGCGGguuuagGGGCgGGAGAauccccAGGUCGu- -3'
miRNA:   3'- -UCuuCGCCa-----UCCG-CUUCU------UCUAGUuc -5'
777 3' -49.2 NC_000852.3 + 201731 0.68 0.999519
Target:  5'- -aAGGUGGU-GGCGGAGGcuggaaaaacauaGGGUCGGGa -3'
miRNA:   3'- ucUUCGCCAuCCGCUUCU-------------UCUAGUUC- -5'
777 3' -49.2 NC_000852.3 + 210136 0.68 0.999129
Target:  5'- cGAccAGCGGgcuucaGGGCGAAGGAGuaCAGGu -3'
miRNA:   3'- uCU--UCGCCa-----UCCGCUUCUUCuaGUUC- -5'
777 3' -49.2 NC_000852.3 + 37890 0.7 0.996959
Target:  5'- cGggGCugggGGUAGGCucgGggGAGGGcUCGGGg -3'
miRNA:   3'- uCuuCG----CCAUCCG---CuuCUUCU-AGUUC- -5'
777 3' -49.2 NC_000852.3 + 32477 0.7 0.996959
Target:  5'- gGGAGGUGG-GGGUGcAGGAGGUgAAGu -3'
miRNA:   3'- -UCUUCGCCaUCCGCuUCUUCUAgUUC- -5'
777 3' -49.2 NC_000852.3 + 273948 0.74 0.952686
Target:  5'- -cGGGCGG-GGGUGGAGGAGGUgGAGg -3'
miRNA:   3'- ucUUCGCCaUCCGCUUCUUCUAgUUC- -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.