miRNA display CGI


Results 1 - 20 of 49 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
11038 3' -54.6 NC_002794.1 + 114923 0.66 0.982871
Target:  5'- gCUCGUCCgagggcagCGUCC-CgGUCAcGAUCu -3'
miRNA:   3'- gGAGCAGG--------GCAGGuGgCAGUuCUAGc -5'
11038 3' -54.6 NC_002794.1 + 176226 0.66 0.982871
Target:  5'- gCUCGUCUCGcCCGgUGUCGAuAUCc -3'
miRNA:   3'- gGAGCAGGGCaGGUgGCAGUUcUAGc -5'
11038 3' -54.6 NC_002794.1 + 74118 0.66 0.982871
Target:  5'- cCCUCGagcaggCCGccgCCGCCGUCucccuGGUCGa -3'
miRNA:   3'- -GGAGCag----GGCa--GGUGGCAGuu---CUAGC- -5'
11038 3' -54.6 NC_002794.1 + 16199 0.66 0.980911
Target:  5'- --aCGUCCCGcCugggCACgGUCGAGGUCc -3'
miRNA:   3'- ggaGCAGGGCaG----GUGgCAGUUCUAGc -5'
11038 3' -54.6 NC_002794.1 + 66400 0.66 0.980911
Target:  5'- cCCgUCGUCCCGcCgACCGUgCgAAGA-CGg -3'
miRNA:   3'- -GG-AGCAGGGCaGgUGGCA-G-UUCUaGC- -5'
11038 3' -54.6 NC_002794.1 + 59944 0.66 0.980911
Target:  5'- uCCgCGUCUuccccaugcaCGUCUACCGgcacccCGAGGUCGa -3'
miRNA:   3'- -GGaGCAGG----------GCAGGUGGCa-----GUUCUAGC- -5'
11038 3' -54.6 NC_002794.1 + 113308 0.66 0.978787
Target:  5'- gCUCGUccgcuaCCCG-CCggGCCGUCAGGuagCGg -3'
miRNA:   3'- gGAGCA------GGGCaGG--UGGCAGUUCua-GC- -5'
11038 3' -54.6 NC_002794.1 + 21419 0.66 0.978787
Target:  5'- aUCUCGagCCCGUCCuCCGaUAAcGUCGg -3'
miRNA:   3'- -GGAGCa-GGGCAGGuGGCaGUUcUAGC- -5'
11038 3' -54.6 NC_002794.1 + 44761 0.66 0.978787
Target:  5'- aCUCGUCgCCGUCCcgacgcagcGCC-UCcguGAUCGg -3'
miRNA:   3'- gGAGCAG-GGCAGG---------UGGcAGuu-CUAGC- -5'
11038 3' -54.6 NC_002794.1 + 155397 0.66 0.976494
Target:  5'- uUCUUGUCCaauaucugcuCGaCCGCCGUCAAGGc-- -3'
miRNA:   3'- -GGAGCAGG----------GCaGGUGGCAGUUCUagc -5'
11038 3' -54.6 NC_002794.1 + 13855 0.66 0.976494
Target:  5'- gCCUCGUCgCCG-CCGCCG-CGAcccGGUUc -3'
miRNA:   3'- -GGAGCAG-GGCaGGUGGCaGUU---CUAGc -5'
11038 3' -54.6 NC_002794.1 + 186229 0.66 0.974023
Target:  5'- uCCggGUCCCG-CCACCaguGUCGAGugcccaacGUCGa -3'
miRNA:   3'- -GGagCAGGGCaGGUGG---CAGUUC--------UAGC- -5'
11038 3' -54.6 NC_002794.1 + 194036 0.66 0.973507
Target:  5'- gCCUCG-CCCGccgccgccgccgCCGCCGcCGAGAgCGc -3'
miRNA:   3'- -GGAGCaGGGCa-----------GGUGGCaGUUCUaGC- -5'
11038 3' -54.6 NC_002794.1 + 107207 0.67 0.968526
Target:  5'- gCCUCG-CCCGgcgCCGCCGggcGGcgCGc -3'
miRNA:   3'- -GGAGCaGGGCa--GGUGGCaguUCuaGC- -5'
11038 3' -54.6 NC_002794.1 + 75400 0.67 0.968526
Target:  5'- cCC-CGUCCCuccucGUCCGCCGUCucc-UCa -3'
miRNA:   3'- -GGaGCAGGG-----CAGGUGGCAGuucuAGc -5'
11038 3' -54.6 NC_002794.1 + 143271 0.67 0.965488
Target:  5'- gCC-CGgCCCGgcgCCgGCCGcUCGGGGUCGg -3'
miRNA:   3'- -GGaGCaGGGCa--GG-UGGC-AGUUCUAGC- -5'
11038 3' -54.6 NC_002794.1 + 186100 0.67 0.965488
Target:  5'- gCUUCGUCgCCGUcgCCGCCG-CcGGGUCc -3'
miRNA:   3'- -GGAGCAG-GGCA--GGUGGCaGuUCUAGc -5'
11038 3' -54.6 NC_002794.1 + 17269 0.67 0.962249
Target:  5'- gCUCGUcaCCCGggcacgCCGCCGcCGAcGGUCa -3'
miRNA:   3'- gGAGCA--GGGCa-----GGUGGCaGUU-CUAGc -5'
11038 3' -54.6 NC_002794.1 + 99402 0.67 0.95515
Target:  5'- gCCgucCG-CCCGcCCGCCGUCGcagcaGGGUCc -3'
miRNA:   3'- -GGa--GCaGGGCaGGUGGCAGU-----UCUAGc -5'
11038 3' -54.6 NC_002794.1 + 53911 0.67 0.95515
Target:  5'- uCCUCGUCgCCGUcggcggcgCCGCCGaacCGAGcUCGc -3'
miRNA:   3'- -GGAGCAG-GGCA--------GGUGGCa--GUUCuAGC- -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.