miRNA display CGI


Results 1 - 17 of 17 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
28393 3' -52 NC_005946.1 + 8933 0.66 0.968684
Target:  5'- -cUGUgCAGGGugGGCUgcCUguugaggGCCACGGGa -3'
miRNA:   3'- uuGCA-GUCUCugCUGA--GA-------UGGUGUCC- -5'
28393 3' -52 NC_005946.1 + 83928 0.66 0.958502
Target:  5'- gGACGUCcuGGGGACaGACagggUCUACUcggagGCGGGg -3'
miRNA:   3'- -UUGCAG--UCUCUG-CUG----AGAUGG-----UGUCC- -5'
28393 3' -52 NC_005946.1 + 57983 0.67 0.945792
Target:  5'- uAGCGUaCGGAGGaucuccuccaGACUCUGagCACGGGa -3'
miRNA:   3'- -UUGCA-GUCUCUg---------CUGAGAUg-GUGUCC- -5'
28393 3' -52 NC_005946.1 + 29642 0.67 0.936033
Target:  5'- -cCGUCGGAGA-GACgUCUAUUAuCAGGa -3'
miRNA:   3'- uuGCAGUCUCUgCUG-AGAUGGU-GUCC- -5'
28393 3' -52 NC_005946.1 + 17236 0.67 0.936033
Target:  5'- -uUGUCAGAGGCcagggGGCUgUACCACGu- -3'
miRNA:   3'- uuGCAGUCUCUG-----CUGAgAUGGUGUcc -5'
28393 3' -52 NC_005946.1 + 102037 0.67 0.936033
Target:  5'- uGACGagccucUCGGAGACGGCU--GCCAgcuCGGGg -3'
miRNA:   3'- -UUGC------AGUCUCUGCUGAgaUGGU---GUCC- -5'
28393 3' -52 NC_005946.1 + 27278 0.67 0.930219
Target:  5'- cGAUGUCguugacgGGAGugGACUUUACCugGa- -3'
miRNA:   3'- -UUGCAG-------UCUCugCUGAGAUGGugUcc -5'
28393 3' -52 NC_005946.1 + 82751 0.68 0.919424
Target:  5'- cAACGUCAacGGGACcGCUCcagagGCCGCgAGGa -3'
miRNA:   3'- -UUGCAGU--CUCUGcUGAGa----UGGUG-UCC- -5'
28393 3' -52 NC_005946.1 + 88453 0.68 0.907035
Target:  5'- gGACGUgcuaggaGGGGACGcAgUCUacaACCACAGGg -3'
miRNA:   3'- -UUGCAg------UCUCUGC-UgAGA---UGGUGUCC- -5'
28393 3' -52 NC_005946.1 + 30011 0.68 0.907035
Target:  5'- uGAUGUCAGAGACuuUUUUgGCCGuCAGGg -3'
miRNA:   3'- -UUGCAGUCUCUGcuGAGA-UGGU-GUCC- -5'
28393 3' -52 NC_005946.1 + 23376 0.68 0.907035
Target:  5'- -uUGUCAGAGACGGCggCUgACCcCAGc -3'
miRNA:   3'- uuGCAGUCUCUGCUGa-GA-UGGuGUCc -5'
28393 3' -52 NC_005946.1 + 79003 0.68 0.897743
Target:  5'- cGGCGgccaCGGAGGCGGCguaCgccagggccggggGCCACAGGg -3'
miRNA:   3'- -UUGCa---GUCUCUGCUGa--Ga------------UGGUGUCC- -5'
28393 3' -52 NC_005946.1 + 64256 0.69 0.863764
Target:  5'- cGGCGUCAGAGGcCGcCUgaGCCAugucCAGGg -3'
miRNA:   3'- -UUGCAGUCUCU-GCuGAgaUGGU----GUCC- -5'
28393 3' -52 NC_005946.1 + 4039 0.7 0.847436
Target:  5'- cGGCGUUGGAGACGGCcagCaacGCCACcGGg -3'
miRNA:   3'- -UUGCAGUCUCUGCUGa--Ga--UGGUGuCC- -5'
28393 3' -52 NC_005946.1 + 56296 0.71 0.7742
Target:  5'- cAAgGUgGGAGACGucggcCUCUGCCGCcGGg -3'
miRNA:   3'- -UUgCAgUCUCUGCu----GAGAUGGUGuCC- -5'
28393 3' -52 NC_005946.1 + 31054 0.73 0.692043
Target:  5'- ---cUCAGAGACGACcgCUACCcucCAGGg -3'
miRNA:   3'- uugcAGUCUCUGCUGa-GAUGGu--GUCC- -5'
28393 3' -52 NC_005946.1 + 53783 1.08 0.005745
Target:  5'- cAACGUCAGAGACGACUCUACCACAGGc -3'
miRNA:   3'- -UUGCAGUCUCUGCUGAGAUGGUGUCC- -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.