miRNA display CGI


Results 1 - 20 of 60 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
8971 5' -56.4 NC_002512.2 + 223627 0.67 0.937994
Target:  5'- -gUCGCUgGUGCUGCUcggcgggcUCGUCAuGCUCu -3'
miRNA:   3'- ggAGCGA-CGUGGCGA--------AGCAGU-CGAGc -5'
8971 5' -56.4 NC_002512.2 + 222446 0.7 0.785736
Target:  5'- gCgUCGCgUGCGCCGUUcUCGUC-GUUCGa -3'
miRNA:   3'- -GgAGCG-ACGUGGCGA-AGCAGuCGAGC- -5'
8971 5' -56.4 NC_002512.2 + 219606 0.67 0.91208
Target:  5'- aCUCGCUGC-CCGgCUUC-UCGGgcaUCGg -3'
miRNA:   3'- gGAGCGACGuGGC-GAAGcAGUCg--AGC- -5'
8971 5' -56.4 NC_002512.2 + 219205 0.66 0.94681
Target:  5'- aCC-CGCUGCACUGC--CGggcCGGcCUCGg -3'
miRNA:   3'- -GGaGCGACGUGGCGaaGCa--GUC-GAGC- -5'
8971 5' -56.4 NC_002512.2 + 217970 0.67 0.928296
Target:  5'- aUUUGCcgaGCGCCGCUUCcUCGGCagcuUCGg -3'
miRNA:   3'- gGAGCGa--CGUGGCGAAGcAGUCG----AGC- -5'
8971 5' -56.4 NC_002512.2 + 217587 0.66 0.94681
Target:  5'- uCCg-GCgGCGCCGCcucgggggUCGUCGGCgacUCGg -3'
miRNA:   3'- -GGagCGaCGUGGCGa-------AGCAGUCG---AGC- -5'
8971 5' -56.4 NC_002512.2 + 216254 0.66 0.958054
Target:  5'- -gUCGUcaucaggUGCGCCGCccgcacCGcCAGCUCGg -3'
miRNA:   3'- ggAGCG-------ACGUGGCGaa----GCaGUCGAGC- -5'
8971 5' -56.4 NC_002512.2 + 214214 0.72 0.720077
Target:  5'- gCC-CGCUGCcccgggacgucagGCgGC-UCGUCGGCUCGc -3'
miRNA:   3'- -GGaGCGACG-------------UGgCGaAGCAGUCGAGC- -5'
8971 5' -56.4 NC_002512.2 + 209559 0.67 0.933256
Target:  5'- gUCUCGgaGCGCgGUcUCGaCGGCUCc -3'
miRNA:   3'- -GGAGCgaCGUGgCGaAGCaGUCGAGc -5'
8971 5' -56.4 NC_002512.2 + 202101 0.7 0.828267
Target:  5'- aCCUCGUccgACCGCguccUCGUCAGCUgGu -3'
miRNA:   3'- -GGAGCGacgUGGCGa---AGCAGUCGAgC- -5'
8971 5' -56.4 NC_002512.2 + 201304 0.68 0.887388
Target:  5'- --aCGC-GCACCGC-UCGgaUCAGCUCc -3'
miRNA:   3'- ggaGCGaCGUGGCGaAGC--AGUCGAGc -5'
8971 5' -56.4 NC_002512.2 + 201187 1.1 0.003764
Target:  5'- cCCUCGCUGCACCGCUUCGUCAGCUCGu -3'
miRNA:   3'- -GGAGCGACGUGGCGAAGCAGUCGAGC- -5'
8971 5' -56.4 NC_002512.2 + 199577 0.66 0.942512
Target:  5'- aCUCGUgcgGUACCGCgggUCGUCGacGCg-- -3'
miRNA:   3'- gGAGCGa--CGUGGCGa--AGCAGU--CGagc -5'
8971 5' -56.4 NC_002512.2 + 197463 0.77 0.426234
Target:  5'- cCCUCGC----CCGCUUCGUCAGCUuCGg -3'
miRNA:   3'- -GGAGCGacguGGCGAAGCAGUCGA-GC- -5'
8971 5' -56.4 NC_002512.2 + 193801 0.66 0.954756
Target:  5'- cCCUgGCccauuggucGCGCCGCUUCGgggUCGGCg-- -3'
miRNA:   3'- -GGAgCGa--------CGUGGCGAAGC---AGUCGagc -5'
8971 5' -56.4 NC_002512.2 + 191173 0.68 0.905036
Target:  5'- gUCUCGCgucucuaucuggGCgACCGuCUccucCGUCGGCUCGg -3'
miRNA:   3'- -GGAGCGa-----------CG-UGGC-GAa---GCAGUCGAGC- -5'
8971 5' -56.4 NC_002512.2 + 187758 0.69 0.844168
Target:  5'- ---aGCUGCGuuGCgUCGUCcGCUCGc -3'
miRNA:   3'- ggagCGACGUggCGaAGCAGuCGAGC- -5'
8971 5' -56.4 NC_002512.2 + 186636 0.66 0.95089
Target:  5'- gCUCGCUGC-CCGCgggccacUGggccCAGCUCc -3'
miRNA:   3'- gGAGCGACGuGGCGaa-----GCa---GUCGAGc -5'
8971 5' -56.4 NC_002512.2 + 186391 0.66 0.95841
Target:  5'- aCCgacCGCUGCAgcuCCGCgUCcUCGGCUUc -3'
miRNA:   3'- -GGa--GCGACGU---GGCGaAGcAGUCGAGc -5'
8971 5' -56.4 NC_002512.2 + 186130 0.68 0.906232
Target:  5'- cCCUCGuCUGCAauaGCUUCcUCGGCgUCu -3'
miRNA:   3'- -GGAGC-GACGUgg-CGAAGcAGUCG-AGc -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.