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
5304 3' -61.3 NC_001798.1 + 103274 0.66 0.687532
Target:  5'- -cUCCCGGGA-GAGCGCgggUCCGcGGc- -3'
miRNA:   3'- cuGGGGCCCUaCUCGCG---AGGCaCCua -5'
5304 3' -61.3 NC_001798.1 + 15276 0.66 0.687532
Target:  5'- uGCCCCGGGuuccGGGCGUggCgGUGGu- -3'
miRNA:   3'- cUGGGGCCCua--CUCGCGa-GgCACCua -5'
5304 3' -61.3 NC_001798.1 + 34741 0.66 0.687532
Target:  5'- cGGgCCCGGGAgcgGGGCGgC-CCGggagGGAg -3'
miRNA:   3'- -CUgGGGCCCUa--CUCGC-GaGGCa---CCUa -5'
5304 3' -61.3 NC_001798.1 + 59746 0.66 0.6579
Target:  5'- cGGCCCCGGGGUGccuccgcuuGGUucccggcgGUUCCG-GGAa -3'
miRNA:   3'- -CUGGGGCCCUAC---------UCG--------CGAGGCaCCUa -5'
5304 3' -61.3 NC_001798.1 + 39410 0.66 0.6579
Target:  5'- cGCUCCGGGAccgGGGCGCggCCGUccgcgugcGGGg -3'
miRNA:   3'- cUGGGGCCCUa--CUCGCGa-GGCA--------CCUa -5'
5304 3' -61.3 NC_001798.1 + 83881 0.66 0.638035
Target:  5'- cGACCCCcGGcccGGGCGCUCCGgaaGAg -3'
miRNA:   3'- -CUGGGGcCCua-CUCGCGAGGCac-CUa -5'
5304 3' -61.3 NC_001798.1 + 3001 0.67 0.618152
Target:  5'- gGGCCCCGGGcgcggGGGCGCggcgggCCG-GGc- -3'
miRNA:   3'- -CUGGGGCCCua---CUCGCGa-----GGCaCCua -5'
5304 3' -61.3 NC_001798.1 + 23572 0.67 0.588419
Target:  5'- gGGCCCCGGGGgcGGCGCcCCGgccGAg -3'
miRNA:   3'- -CUGGGGCCCUacUCGCGaGGCac-CUa -5'
5304 3' -61.3 NC_001798.1 + 53222 0.68 0.568735
Target:  5'- cACCCCGGaGggGcuccucAGCGCggCCGUGGGc -3'
miRNA:   3'- cUGGGGCC-CuaC------UCGCGa-GGCACCUa -5'
5304 3' -61.3 NC_001798.1 + 27567 0.68 0.568735
Target:  5'- cGCCCgCGGGG-GAGCggccgGCUCCGggGGAg -3'
miRNA:   3'- cUGGG-GCCCUaCUCG-----CGAGGCa-CCUa -5'
5304 3' -61.3 NC_001798.1 + 24897 0.68 0.529917
Target:  5'- gGGCCCUGGGcccGGCGCUgCCGcGGAg -3'
miRNA:   3'- -CUGGGGCCCuacUCGCGA-GGCaCCUa -5'
5304 3' -61.3 NC_001798.1 + 149997 0.69 0.510869
Target:  5'- gGACgCCGGGgcGAGCGgC-CCGUGGc- -3'
miRNA:   3'- -CUGgGGCCCuaCUCGC-GaGGCACCua -5'
5304 3' -61.3 NC_001798.1 + 105995 0.69 0.501452
Target:  5'- cGACCCCugGGGAggggGGGuCGCUCUcugGUGGGg -3'
miRNA:   3'- -CUGGGG--CCCUa---CUC-GCGAGG---CACCUa -5'
5304 3' -61.3 NC_001798.1 + 120344 0.69 0.464592
Target:  5'- cGCCCCGGGGUGcAGCGCcagcaCC-UGGGc -3'
miRNA:   3'- cUGGGGCCCUAC-UCGCGa----GGcACCUa -5'
5304 3' -61.3 NC_001798.1 + 85035 0.7 0.446698
Target:  5'- cGCCCCGGGGgugccgucGAGCGCcgCCGUGc-- -3'
miRNA:   3'- cUGGGGCCCUa-------CUCGCGa-GGCACcua -5'
5304 3' -61.3 NC_001798.1 + 52038 0.7 0.437896
Target:  5'- --gCCCGGGGUGcgcGCGCUCC-UGGGg -3'
miRNA:   3'- cugGGGCCCUACu--CGCGAGGcACCUa -5'
5304 3' -61.3 NC_001798.1 + 70580 0.71 0.392156
Target:  5'- cGGCCCUGGGGccgGuGCGCguccgccagugugCCGUGGAg -3'
miRNA:   3'- -CUGGGGCCCUa--CuCGCGa------------GGCACCUa -5'
5304 3' -61.3 NC_001798.1 + 138726 0.72 0.333284
Target:  5'- aGCCCCGGGccGGcGCGCUCCGcGGc- -3'
miRNA:   3'- cUGGGGCCCuaCU-CGCGAGGCaCCua -5'
5304 3' -61.3 NC_001798.1 + 15942 0.73 0.307747
Target:  5'- gGGCCCCGGGGgcccaaugGGGCGgcagaccccgacgucUUCCGUGGGUc -3'
miRNA:   3'- -CUGGGGCCCUa-------CUCGC---------------GAGGCACCUA- -5'
5304 3' -61.3 NC_001798.1 + 34810 0.73 0.298227
Target:  5'- gGGCCCCGGGGcccccGCGCUCCGccgGGGg -3'
miRNA:   3'- -CUGGGGCCCUacu--CGCGAGGCa--CCUa -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.