miRNA display CGI


Results 1 - 12 of 12 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
11972 3' -51.2 NC_003278.1 + 21992 0.66 0.782997
Target:  5'- gCCAGCA---GCAGCC-GCAUcGGUGc -3'
miRNA:   3'- gGGUCGUauaCGUCGGaCGUA-CUAUa -5'
11972 3' -51.2 NC_003278.1 + 14815 0.66 0.771017
Target:  5'- gCCCAGCGUGgucggguUGCuGCCgGCgGUGAc-- -3'
miRNA:   3'- -GGGUCGUAU-------ACGuCGGaCG-UACUaua -5'
11972 3' -51.2 NC_003278.1 + 13605 0.66 0.747595
Target:  5'- cCCCAGCGUcagcguaauuccgGUGCAguagggcGCCUGgGcUGGUGUg -3'
miRNA:   3'- -GGGUCGUA-------------UACGU-------CGGACgU-ACUAUA- -5'
11972 3' -51.2 NC_003278.1 + 33212 0.67 0.710774
Target:  5'- gCCGGC---UGCGGCCgaggccaucgccgGCGUGAUGg -3'
miRNA:   3'- gGGUCGuauACGUCGGa------------CGUACUAUa -5'
11972 3' -51.2 NC_003278.1 + 3135 0.67 0.680145
Target:  5'- uCCCGuugacCAUGcUGCAGCCgUGCAUGGUc- -3'
miRNA:   3'- -GGGUc----GUAU-ACGUCGG-ACGUACUAua -5'
11972 3' -51.2 NC_003278.1 + 21673 0.68 0.657516
Target:  5'- gCCCAGCAUGgccagcaGCGGCUggucgaacgucggugGCGUGAUc- -3'
miRNA:   3'- -GGGUCGUAUa------CGUCGGa--------------CGUACUAua -5'
11972 3' -51.2 NC_003278.1 + 30820 0.68 0.608461
Target:  5'- gCCCAGCGcgacaGCGGCCagagcgGCGUGAUc- -3'
miRNA:   3'- -GGGUCGUaua--CGUCGGa-----CGUACUAua -5'
11972 3' -51.2 NC_003278.1 + 21989 0.69 0.596526
Target:  5'- gCCAGCGUGUGCAGgCUGaa-GAc-- -3'
miRNA:   3'- gGGUCGUAUACGUCgGACguaCUaua -5'
11972 3' -51.2 NC_003278.1 + 16069 0.69 0.569229
Target:  5'- aCCCAGCGUGcacguucacucUGCAGCgaGCAggggcgugagcgggUGGUAc -3'
miRNA:   3'- -GGGUCGUAU-----------ACGUCGgaCGU--------------ACUAUa -5'
11972 3' -51.2 NC_003278.1 + 17170 0.69 0.549251
Target:  5'- gCCCGccuuGCcgAUgGCAGCCUGCAcguUGGUGa -3'
miRNA:   3'- -GGGU----CGuaUA-CGUCGGACGU---ACUAUa -5'
11972 3' -51.2 NC_003278.1 + 34982 0.72 0.415763
Target:  5'- uCCCAGCGUGUGCgagagagccuggaAGCCUGCc------ -3'
miRNA:   3'- -GGGUCGUAUACG-------------UCGGACGuacuaua -5'
11972 3' -51.2 NC_003278.1 + 11026 1.09 0.001111
Target:  5'- cCCCAGCAUAUGCAGCCUGCAUGAUAUa -3'
miRNA:   3'- -GGGUCGUAUACGUCGGACGUACUAUA- -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.