miRNA display CGI


Results 1 - 14 of 14 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
16436 3' -56.3 NC_004084.1 + 22819 0.66 0.697015
Target:  5'- uGGAGAucGgGCCGGGUGAggcguUCGucGACg -3'
miRNA:   3'- gCCUCUu-CgCGGUCCACU-----AGCcaCUG- -5'
16436 3' -56.3 NC_004084.1 + 3986 0.66 0.686273
Target:  5'- uGGGGAuuCGCUcucgGGGUGGgaaUCGGUaGACa -3'
miRNA:   3'- gCCUCUucGCGG----UCCACU---AGCCA-CUG- -5'
16436 3' -56.3 NC_004084.1 + 47561 0.66 0.686273
Target:  5'- uGGAGGAGaCGCCguucgAGGacguucgcGAgcgCGGUGGCg -3'
miRNA:   3'- gCCUCUUC-GCGG-----UCCa-------CUa--GCCACUG- -5'
16436 3' -56.3 NC_004084.1 + 29281 0.66 0.664647
Target:  5'- cCGGc--AGCGCCAGGUGuUCGGcGuCu -3'
miRNA:   3'- -GCCucuUCGCGGUCCACuAGCCaCuG- -5'
16436 3' -56.3 NC_004084.1 + 5878 0.66 0.642903
Target:  5'- aGGAGGAGCagaccGCCAcGGgGAUCGuccUGACg -3'
miRNA:   3'- gCCUCUUCG-----CGGU-CCaCUAGCc--ACUG- -5'
16436 3' -56.3 NC_004084.1 + 21024 0.66 0.639636
Target:  5'- ---cGAGGCGCguGGUgcugggaccgaaucGAUCGGUGAa -3'
miRNA:   3'- gccuCUUCGCGguCCA--------------CUAGCCACUg -5'
16436 3' -56.3 NC_004084.1 + 43808 0.67 0.632011
Target:  5'- gGcGAGGAGCGCCGGGagaugGAUCauucGUGGg -3'
miRNA:   3'- gC-CUCUUCGCGGUCCa----CUAGc---CACUg -5'
16436 3' -56.3 NC_004084.1 + 4060 0.67 0.588537
Target:  5'- aCGGAGAaggGGCGCgAGGagaugcggaaccUGAUCGaG-GACa -3'
miRNA:   3'- -GCCUCU---UCGCGgUCC------------ACUAGC-CaCUG- -5'
16436 3' -56.3 NC_004084.1 + 1717 0.67 0.588537
Target:  5'- gCGGAGGauGGCGgCuGcucGAUCGGUGACc -3'
miRNA:   3'- -GCCUCU--UCGCgGuCca-CUAGCCACUG- -5'
16436 3' -56.3 NC_004084.1 + 50080 0.68 0.56698
Target:  5'- uCGGAGAcgaugAGCGCCGGGUucauccGAgcgCGGUa-- -3'
miRNA:   3'- -GCCUCU-----UCGCGGUCCA------CUa--GCCAcug -5'
16436 3' -56.3 NC_004084.1 + 21828 0.68 0.524544
Target:  5'- aCGGuGAGGCGCuggacgaugCAGG-GAUUGGcGACg -3'
miRNA:   3'- -GCCuCUUCGCG---------GUCCaCUAGCCaCUG- -5'
16436 3' -56.3 NC_004084.1 + 42772 0.69 0.493527
Target:  5'- gGGaAGGAGUGCUGGGaucaCGGUGACg -3'
miRNA:   3'- gCC-UCUUCGCGGUCCacuaGCCACUG- -5'
16436 3' -56.3 NC_004084.1 + 11211 0.72 0.35358
Target:  5'- ----aGAGCGgaCGGGUGAUCGGUGGCc -3'
miRNA:   3'- gccucUUCGCg-GUCCACUAGCCACUG- -5'
16436 3' -56.3 NC_004084.1 + 36619 1.11 0.000646
Target:  5'- aCGGAGAAGCGCCAGGUGAUCGGUGACg -3'
miRNA:   3'- -GCCUCUUCGCGGUCCACUAGCCACUG- -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.