miRNA display CGI


Results 1 - 20 of 20 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
12033 5' -57.1 NC_003278.1 + 13663 0.66 0.490361
Target:  5'- gGCGGCcagGCGCUcaaguucgguGGCguUGCGUGGGAGa -3'
miRNA:   3'- gCGCCGa--UGUGG----------UCG--GCGCACCUUUg -5'
12033 5' -57.1 NC_003278.1 + 2599 0.66 0.479889
Target:  5'- -cUGGCgccCACCGGCCGUGaUGGucuuGCg -3'
miRNA:   3'- gcGCCGau-GUGGUCGGCGC-ACCuu--UG- -5'
12033 5' -57.1 NC_003278.1 + 5685 0.66 0.469527
Target:  5'- cCGCGGCUAcCACCAaCCGCGc------ -3'
miRNA:   3'- -GCGCCGAU-GUGGUcGGCGCaccuuug -5'
12033 5' -57.1 NC_003278.1 + 11895 0.66 0.459281
Target:  5'- cCGCgGGCcgGCGCCGaCCGCGaaUGGAAc- -3'
miRNA:   3'- -GCG-CCGa-UGUGGUcGGCGC--ACCUUug -5'
12033 5' -57.1 NC_003278.1 + 22042 0.66 0.459281
Target:  5'- uGCGGCUGCugcuggcgugucGCCAcucggucuGCCGC-UGGAAc- -3'
miRNA:   3'- gCGCCGAUG------------UGGU--------CGGCGcACCUUug -5'
12033 5' -57.1 NC_003278.1 + 22581 0.66 0.458263
Target:  5'- gCGCGGCgccgugcUGCACCucuGGCUGgGcUGGAguGACa -3'
miRNA:   3'- -GCGCCG-------AUGUGG---UCGGCgC-ACCU--UUG- -5'
12033 5' -57.1 NC_003278.1 + 32434 0.67 0.429281
Target:  5'- --aGGCUGCGCCAGUCGC-UGccGGCu -3'
miRNA:   3'- gcgCCGAUGUGGUCGGCGcACcuUUG- -5'
12033 5' -57.1 NC_003278.1 + 32161 0.67 0.409935
Target:  5'- gGCGGUcugGC-CCAGUCGC--GGAAGCg -3'
miRNA:   3'- gCGCCGa--UGuGGUCGGCGcaCCUUUG- -5'
12033 5' -57.1 NC_003278.1 + 9611 0.67 0.400467
Target:  5'- aGCaGCUGCGCCAGgCGC-UGGccauccgcGAACg -3'
miRNA:   3'- gCGcCGAUGUGGUCgGCGcACC--------UUUG- -5'
12033 5' -57.1 NC_003278.1 + 9017 0.67 0.391139
Target:  5'- gGCGGCUAUGCCGGCgGCaccgccGAGCa -3'
miRNA:   3'- gCGCCGAUGUGGUCGgCGcacc--UUUG- -5'
12033 5' -57.1 NC_003278.1 + 33912 0.67 0.391139
Target:  5'- aCGCGGCUGguguaGCCgcggaAGCCGC-UGGcgGCa -3'
miRNA:   3'- -GCGCCGAUg----UGG-----UCGGCGcACCuuUG- -5'
12033 5' -57.1 NC_003278.1 + 11951 0.68 0.346681
Target:  5'- uCGCGGUcgGCGCCGGCCcGCG-GcGAuGCc -3'
miRNA:   3'- -GCGCCGa-UGUGGUCGG-CGCaC-CUuUG- -5'
12033 5' -57.1 NC_003278.1 + 23364 0.68 0.346681
Target:  5'- gGCGGUUACaucACCAGCCuggaGC-UGGAAAg -3'
miRNA:   3'- gCGCCGAUG---UGGUCGG----CGcACCUUUg -5'
12033 5' -57.1 NC_003278.1 + 31679 0.68 0.34583
Target:  5'- uGCGGCgcCGCCgcccaGGCCGCagcagaaGUGGAAGu -3'
miRNA:   3'- gCGCCGauGUGG-----UCGGCG-------CACCUUUg -5'
12033 5' -57.1 NC_003278.1 + 2533 0.69 0.32994
Target:  5'- cCGCGa--AUACCGGCCGCaUGGAGAUu -3'
miRNA:   3'- -GCGCcgaUGUGGUCGGCGcACCUUUG- -5'
12033 5' -57.1 NC_003278.1 + 30016 0.69 0.302865
Target:  5'- cCGUGGCguucuggcucauCACCAggguGCCGCGgaagGGggGCu -3'
miRNA:   3'- -GCGCCGau----------GUGGU----CGGCGCa---CCuuUG- -5'
12033 5' -57.1 NC_003278.1 + 23031 0.69 0.298268
Target:  5'- uGCGGCaGCGCCAgGCCGC-UGGc--- -3'
miRNA:   3'- gCGCCGaUGUGGU-CGGCGcACCuuug -5'
12033 5' -57.1 NC_003278.1 + 32110 0.72 0.195025
Target:  5'- cCGCGGCU-CGCCAGaCGCG-GGAc-- -3'
miRNA:   3'- -GCGCCGAuGUGGUCgGCGCaCCUuug -5'
12033 5' -57.1 NC_003278.1 + 33203 0.73 0.169834
Target:  5'- uGCGGUUcCGCCGGCUGCGgccGAGGCc -3'
miRNA:   3'- gCGCCGAuGUGGUCGGCGCac-CUUUG- -5'
12033 5' -57.1 NC_003278.1 + 33858 1.09 0.00037
Target:  5'- cCGCGGCUACACCAGCCGCGUGGAAACc -3'
miRNA:   3'- -GCGCCGAUGUGGUCGGCGCACCUUUG- -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.