miRNA display CGI


Results 1 - 20 of 68 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
23560 3' -53.3 NC_005261.1 + 1727 0.69 0.885369
Target:  5'- uCG-CCGGAGCagGCGUCGGcGCcGAGCu -3'
miRNA:   3'- -GCaGGCCUCGa-UGUAGCU-CGuCUUGc -5'
23560 3' -53.3 NC_005261.1 + 1776 0.7 0.85546
Target:  5'- aGUCUGGGGCUGCcgCGuGCcccuGCGa -3'
miRNA:   3'- gCAGGCCUCGAUGuaGCuCGucu-UGC- -5'
23560 3' -53.3 NC_005261.1 + 3657 0.72 0.757499
Target:  5'- gCGUCUGGAGCgcagGCcgCGgccGGCAGGccGCGg -3'
miRNA:   3'- -GCAGGCCUCGa---UGuaGC---UCGUCU--UGC- -5'
23560 3' -53.3 NC_005261.1 + 4907 0.67 0.938849
Target:  5'- gCGUgCCggcaGGAGCUGCG-CGAGCAGccagucguccuuGGCGg -3'
miRNA:   3'- -GCA-GG----CCUCGAUGUaGCUCGUC------------UUGC- -5'
23560 3' -53.3 NC_005261.1 + 5157 0.75 0.552635
Target:  5'- gGcCCGGcgGGCcGCGUCGAGCAGGGCc -3'
miRNA:   3'- gCaGGCC--UCGaUGUAGCUCGUCUUGc -5'
23560 3' -53.3 NC_005261.1 + 7530 0.66 0.956255
Target:  5'- aCGUCCucggcGAGgUGC-UCGAGCAGcACGc -3'
miRNA:   3'- -GCAGGc----CUCgAUGuAGCUCGUCuUGC- -5'
23560 3' -53.3 NC_005261.1 + 10399 0.69 0.885369
Target:  5'- cCGUCCGcuGCUcgcgGCcgCGAGCGcGAGCGg -3'
miRNA:   3'- -GCAGGCcuCGA----UGuaGCUCGU-CUUGC- -5'
23560 3' -53.3 NC_005261.1 + 11854 0.67 0.952263
Target:  5'- gCGUUCGcGAGCgcgaGCGUCagcuGCGGGGCGa -3'
miRNA:   3'- -GCAGGC-CUCGa---UGUAGcu--CGUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 13682 0.69 0.885369
Target:  5'- ---gCGGGGCgcgcggGCGUgGGGCGGGGCGg -3'
miRNA:   3'- gcagGCCUCGa-----UGUAgCUCGUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 23291 0.66 0.968728
Target:  5'- gCGUCCGuGGGC-ACAgcacccguauggcCGAGCAGAAa- -3'
miRNA:   3'- -GCAGGC-CUCGaUGUa------------GCUCGUCUUgc -5'
23560 3' -53.3 NC_005261.1 + 23981 0.67 0.952263
Target:  5'- -uUCCGGgcgGGCUA-GUCGcGGCGGAGCGc -3'
miRNA:   3'- gcAGGCC---UCGAUgUAGC-UCGUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 24382 0.67 0.952263
Target:  5'- --cCCGGugGGCU-CGUCGgcGGCGGGGCGg -3'
miRNA:   3'- gcaGGCC--UCGAuGUAGC--UCGUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 27710 0.67 0.952263
Target:  5'- uCG-CCGGAGCccucGCcgCGGGaGGAGCGg -3'
miRNA:   3'- -GCaGGCCUCGa---UGuaGCUCgUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 30413 0.68 0.92323
Target:  5'- gCGggCCGGGGC-ACcgCGGGCGGAccuggaggaggACGg -3'
miRNA:   3'- -GCa-GGCCUCGaUGuaGCUCGUCU-----------UGC- -5'
23560 3' -53.3 NC_005261.1 + 31502 0.76 0.512411
Target:  5'- gCG-CCGGGGCUGCA-CGAGguGGGCc -3'
miRNA:   3'- -GCaGGCCUCGAUGUaGCUCguCUUGc -5'
23560 3' -53.3 NC_005261.1 + 33149 0.68 0.911582
Target:  5'- gGUCCGGGGCgcggaGUCG-GCGGAc-- -3'
miRNA:   3'- gCAGGCCUCGaug--UAGCuCGUCUugc -5'
23560 3' -53.3 NC_005261.1 + 34412 0.67 0.948033
Target:  5'- -cUCCGcGAGCUGCuggcggCGGGCGcAACGg -3'
miRNA:   3'- gcAGGC-CUCGAUGua----GCUCGUcUUGC- -5'
23560 3' -53.3 NC_005261.1 + 37941 0.78 0.426939
Target:  5'- gCG-CCGGAGCcGCGUCGAGCGGGu-- -3'
miRNA:   3'- -GCaGGCCUCGaUGUAGCUCGUCUugc -5'
23560 3' -53.3 NC_005261.1 + 39992 0.68 0.928684
Target:  5'- cCG-CCGGcguGCgugaagGCGUaCGAGCAGAACu -3'
miRNA:   3'- -GCaGGCCu--CGa-----UGUA-GCUCGUCUUGc -5'
23560 3' -53.3 NC_005261.1 + 42185 0.67 0.951436
Target:  5'- cCGUCCuGGAGCgggcgggacgcgGCGUUGAGCAcGuGCa -3'
miRNA:   3'- -GCAGG-CCUCGa-----------UGUAGCUCGU-CuUGc -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.