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
18960 3' -53.5 NC_004683.1 + 16490 0.66 0.79846
Target:  5'- gCUCGAUCGcgguCAGGAucGAUCCgaACCAGg- -3'
miRNA:   3'- -GAGUUGGCu---GUCCU--CUAGG--UGGUCac -5'
18960 3' -53.5 NC_004683.1 + 26143 0.66 0.79846
Target:  5'- gCUCggUCGACAGGAcGAacgCgCGCCGGa- -3'
miRNA:   3'- -GAGuuGGCUGUCCU-CUa--G-GUGGUCac -5'
18960 3' -53.5 NC_004683.1 + 26911 0.66 0.79846
Target:  5'- gUCGGCCGACAaGAuGAUCgCGUCGGUGa -3'
miRNA:   3'- gAGUUGGCUGUcCU-CUAG-GUGGUCAC- -5'
18960 3' -53.5 NC_004683.1 + 36933 0.66 0.786621
Target:  5'- cCUCGACCGACcaguguuuuacccucGGGAGugcCCugagcagcgcuacgaGCCGGUGa -3'
miRNA:   3'- -GAGUUGGCUG---------------UCCUCua-GG---------------UGGUCAC- -5'
18960 3' -53.5 NC_004683.1 + 26077 0.67 0.778595
Target:  5'- gUCGACCGAgCAGGcccaacagcAGGUgCGCgAGUGa -3'
miRNA:   3'- gAGUUGGCU-GUCC---------UCUAgGUGgUCAC- -5'
18960 3' -53.5 NC_004683.1 + 19403 0.67 0.747665
Target:  5'- -gCGAUCGGCuGGGGAacgUCCgaagacgcgGCCAGUGg -3'
miRNA:   3'- gaGUUGGCUGuCCUCU---AGG---------UGGUCAC- -5'
18960 3' -53.5 NC_004683.1 + 51290 0.68 0.726426
Target:  5'- aCUCAucGCCGAgCuGGAGggCCGCCGaUGa -3'
miRNA:   3'- -GAGU--UGGCU-GuCCUCuaGGUGGUcAC- -5'
18960 3' -53.5 NC_004683.1 + 16605 0.68 0.671852
Target:  5'- gUCGACCuguGGCggccGGGGGAUCCgcagccagACCGGUGg -3'
miRNA:   3'- gAGUUGG---CUG----UCCUCUAGG--------UGGUCAC- -5'
18960 3' -53.5 NC_004683.1 + 42557 0.69 0.649675
Target:  5'- uUCGAUCGuCAGGuucGAUCCACCAc-- -3'
miRNA:   3'- gAGUUGGCuGUCCu--CUAGGUGGUcac -5'
18960 3' -53.5 NC_004683.1 + 44902 0.7 0.605205
Target:  5'- -gUAACCGAUuGGAcggccggacGGUUCACCAGUGg -3'
miRNA:   3'- gaGUUGGCUGuCCU---------CUAGGUGGUCAC- -5'
18960 3' -53.5 NC_004683.1 + 33713 0.72 0.445931
Target:  5'- aCUCcGCCGGgguUAGGGGAUCCacaGCCAGUc -3'
miRNA:   3'- -GAGuUGGCU---GUCCUCUAGG---UGGUCAc -5'
18960 3' -53.5 NC_004683.1 + 51814 1.09 0.001526
Target:  5'- cCUCAACCGACAGGAGAUCCACCAGUGa -3'
miRNA:   3'- -GAGUUGGCUGUCCUCUAGGUGGUCAC- -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.