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
3964 5' -54.7 NC_001650.1 + 36661 0.66 0.963785
Target:  5'- uCCUgcCUGCugGa-CGugGCCGGGCg- -3'
miRNA:   3'- -GGAa-GACGugCacGCugCGGUUCGac -5'
3964 5' -54.7 NC_001650.1 + 35592 0.66 0.960344
Target:  5'- uCCg---GCGCGUGCGAgCGCCugGGGgaGg -3'
miRNA:   3'- -GGaagaCGUGCACGCU-GCGG--UUCgaC- -5'
3964 5' -54.7 NC_001650.1 + 116245 0.66 0.956684
Target:  5'- uCCUUCgggagGCuggACGUGCG-CGCCGuccucaGGCUc -3'
miRNA:   3'- -GGAAGa----CG---UGCACGCuGCGGU------UCGAc -5'
3964 5' -54.7 NC_001650.1 + 145783 0.66 0.956684
Target:  5'- cCCggUUGCggaGCG-GCGGCGCCAcAGCg- -3'
miRNA:   3'- -GGaaGACG---UGCaCGCUGCGGU-UCGac -5'
3964 5' -54.7 NC_001650.1 + 97399 0.66 0.9528
Target:  5'- aUCUUcCUGCugGUGCcccuguGGCGCUacGAGCa- -3'
miRNA:   3'- -GGAA-GACGugCACG------CUGCGG--UUCGac -5'
3964 5' -54.7 NC_001650.1 + 82356 0.66 0.951997
Target:  5'- cCCgcCUGCACGgaggcuggauagGCGGuCGCCu-GCUGg -3'
miRNA:   3'- -GGaaGACGUGCa-----------CGCU-GCGGuuCGAC- -5'
3964 5' -54.7 NC_001650.1 + 71563 0.66 0.948689
Target:  5'- aCCUcCUGCACcccuCGGCGCaCGAGCUc -3'
miRNA:   3'- -GGAaGACGUGcac-GCUGCG-GUUCGAc -5'
3964 5' -54.7 NC_001650.1 + 107518 0.67 0.944347
Target:  5'- gCUgugCgGCACGgacgGCGACGC--GGCUGa -3'
miRNA:   3'- gGAa--GaCGUGCa---CGCUGCGguUCGAC- -5'
3964 5' -54.7 NC_001650.1 + 91542 0.67 0.944347
Target:  5'- uCCUUUguuUACGgagGCGGCGUgCAGGCUGa -3'
miRNA:   3'- -GGAAGac-GUGCa--CGCUGCG-GUUCGAC- -5'
3964 5' -54.7 NC_001650.1 + 175457 0.67 0.93496
Target:  5'- cCCUcUUGCAUGuUGCG-CGCCGGGUc- -3'
miRNA:   3'- -GGAaGACGUGC-ACGCuGCGGUUCGac -5'
3964 5' -54.7 NC_001650.1 + 8750 0.67 0.93496
Target:  5'- cCCUcUUGCAUGuUGCG-CGCCGGGUc- -3'
miRNA:   3'- -GGAaGACGUGC-ACGCuGCGGUUCGac -5'
3964 5' -54.7 NC_001650.1 + 29205 0.67 0.93496
Target:  5'- cCCUggcaguggCaGCACGUGCcccgaaggGugGCCGGGCUc -3'
miRNA:   3'- -GGAa-------GaCGUGCACG--------CugCGGUUCGAc -5'
3964 5' -54.7 NC_001650.1 + 155009 0.68 0.901118
Target:  5'- cCCUUCgggGCACGUGCuGCcacuGCCAGGg-- -3'
miRNA:   3'- -GGAAGa--CGUGCACGcUG----CGGUUCgac -5'
3964 5' -54.7 NC_001650.1 + 122289 0.68 0.887969
Target:  5'- ---cCUGCACGcccccGCGGCGCgCGAGCa- -3'
miRNA:   3'- ggaaGACGUGCa----CGCUGCG-GUUCGac -5'
3964 5' -54.7 NC_001650.1 + 149741 0.68 0.887969
Target:  5'- gUCUUCUGaCACcggGUGCG-CGCCcGGCUc -3'
miRNA:   3'- -GGAAGAC-GUG---CACGCuGCGGuUCGAc -5'
3964 5' -54.7 NC_001650.1 + 35502 0.69 0.881056
Target:  5'- aCUUUuacgUGCGCGUGCccgaGGgGCuCAAGCUGg -3'
miRNA:   3'- gGAAG----ACGUGCACG----CUgCG-GUUCGAC- -5'
3964 5' -54.7 NC_001650.1 + 23734 0.69 0.866576
Target:  5'- aCCUcCUGCGCGUccucGCGGCGCgCGgggGGCg- -3'
miRNA:   3'- -GGAaGACGUGCA----CGCUGCG-GU---UCGac -5'
3964 5' -54.7 NC_001650.1 + 47946 0.7 0.809632
Target:  5'- --cUUUGCugGgUGCGugGCCAucgcgcuguGGCUGa -3'
miRNA:   3'- ggaAGACGugC-ACGCugCGGU---------UCGAC- -5'
3964 5' -54.7 NC_001650.1 + 25424 0.71 0.782676
Target:  5'- cCCUccUCagggGCAgGaGCGACGCCGAGCa- -3'
miRNA:   3'- -GGA--AGa---CGUgCaCGCUGCGGUUCGac -5'
3964 5' -54.7 NC_001650.1 + 128469 0.71 0.76402
Target:  5'- aCCaucaggCUGCugGgcuucGCGGCGCgCGAGCUGc -3'
miRNA:   3'- -GGaa----GACGugCa----CGCUGCG-GUUCGAC- -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.