miRNA display CGI


Results 1 - 20 of 67 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
23034 3' -58.1 NC_005178.1 + 15150 1.14 0.000145
Target:  5'- uGGCCGAGCGCUUCACCAGCUCGGUGCg -3'
miRNA:   3'- -CCGGCUCGCGAAGUGGUCGAGCCACG- -5'
23034 3' -58.1 NC_005178.1 + 20485 0.78 0.069444
Target:  5'- aGGCCGAGgGUUUCGCgCAGCUUGGccagGUu -3'
miRNA:   3'- -CCGGCUCgCGAAGUG-GUCGAGCCa---CG- -5'
23034 3' -58.1 NC_005178.1 + 14066 0.76 0.092701
Target:  5'- uGGCCGuccgGGUGgUcCACCAGCUCGG-GCa -3'
miRNA:   3'- -CCGGC----UCGCgAaGUGGUCGAGCCaCG- -5'
23034 3' -58.1 NC_005178.1 + 9486 0.75 0.110026
Target:  5'- aGGCCgGGGCgGUUUCGCuCAGUggaCGGUGCg -3'
miRNA:   3'- -CCGG-CUCG-CGAAGUG-GUCGa--GCCACG- -5'
23034 3' -58.1 NC_005178.1 + 22694 0.75 0.110026
Target:  5'- aGGCCGAGCuGgaUCGCCGGgUCGcUGCc -3'
miRNA:   3'- -CCGGCUCG-CgaAGUGGUCgAGCcACG- -5'
23034 3' -58.1 NC_005178.1 + 3032 0.72 0.176796
Target:  5'- aGGCCGAGCGUggCGCCc---UGGUGCc -3'
miRNA:   3'- -CCGGCUCGCGaaGUGGucgaGCCACG- -5'
23034 3' -58.1 NC_005178.1 + 4468 0.72 0.186685
Target:  5'- cGGUCGGGUGCgguUCAUCGauccGCUCGGccUGCa -3'
miRNA:   3'- -CCGGCUCGCGa--AGUGGU----CGAGCC--ACG- -5'
23034 3' -58.1 NC_005178.1 + 32260 0.72 0.19181
Target:  5'- uGGCCaaaCGCUcggugUCGgcguCCAGCUCGGUGCu -3'
miRNA:   3'- -CCGGcucGCGA-----AGU----GGUCGAGCCACG- -5'
23034 3' -58.1 NC_005178.1 + 24647 0.72 0.197058
Target:  5'- cGGCCGaAGCGCccaggUCGCCGGUaucCGGcuUGCu -3'
miRNA:   3'- -CCGGC-UCGCGa----AGUGGUCGa--GCC--ACG- -5'
23034 3' -58.1 NC_005178.1 + 8755 0.72 0.197058
Target:  5'- uGCCGugGGCGaCUUgGCCAGCgugCGGgcgGCg -3'
miRNA:   3'- cCGGC--UCGC-GAAgUGGUCGa--GCCa--CG- -5'
23034 3' -58.1 NC_005178.1 + 4484 0.72 0.197058
Target:  5'- cGCCcAGCGCU--ACCGGCagUGGUGCg -3'
miRNA:   3'- cCGGcUCGCGAagUGGUCGa-GCCACG- -5'
23034 3' -58.1 NC_005178.1 + 23535 0.71 0.219318
Target:  5'- cGGCCGAGCaGCgg-GCCGGCUucgcgcCGG-GCg -3'
miRNA:   3'- -CCGGCUCG-CGaagUGGUCGA------GCCaCG- -5'
23034 3' -58.1 NC_005178.1 + 27366 0.71 0.219318
Target:  5'- aGGCCGGcGCGCUgcugCGCCuggagcuucuGCUCGGcGUu -3'
miRNA:   3'- -CCGGCU-CGCGAa---GUGGu---------CGAGCCaCG- -5'
23034 3' -58.1 NC_005178.1 + 18148 0.71 0.230624
Target:  5'- gGGCCaGGCGCUgcggcagguUCGCCAGCUgcucgcgagcgacCGG-GCu -3'
miRNA:   3'- -CCGGcUCGCGA---------AGUGGUCGA-------------GCCaCG- -5'
23034 3' -58.1 NC_005178.1 + 3805 0.71 0.231233
Target:  5'- uGGCCcGGCGCgUCagcuugaaggugGCCAGCUUGGccugGCg -3'
miRNA:   3'- -CCGGcUCGCGaAG------------UGGUCGAGCCa---CG- -5'
23034 3' -58.1 NC_005178.1 + 8651 0.71 0.237393
Target:  5'- cGG-CGAGCGCguggugcagUUgggGCCGGCUCGGccUGCg -3'
miRNA:   3'- -CCgGCUCGCGa--------AG---UGGUCGAGCC--ACG- -5'
23034 3' -58.1 NC_005178.1 + 29963 0.7 0.243689
Target:  5'- cGGCCuGGCGUggaaCGCgCAGCccggcaacUCGGUGCa -3'
miRNA:   3'- -CCGGcUCGCGaa--GUG-GUCG--------AGCCACG- -5'
23034 3' -58.1 NC_005178.1 + 36011 0.7 0.256698
Target:  5'- aGGCCGAGgGCgacacuuacauuUUCACCggGGC-CGGgGCg -3'
miRNA:   3'- -CCGGCUCgCG------------AAGUGG--UCGaGCCaCG- -5'
23034 3' -58.1 NC_005178.1 + 16256 0.7 0.263413
Target:  5'- uGGCCGAG-GCcggUCACC-GCUCGcaGCa -3'
miRNA:   3'- -CCGGCUCgCGa--AGUGGuCGAGCcaCG- -5'
23034 3' -58.1 NC_005178.1 + 17333 0.7 0.263413
Target:  5'- gGGCCGAG-GUcgC-CCAGCUCGGcaGCc -3'
miRNA:   3'- -CCGGCUCgCGaaGuGGUCGAGCCa-CG- -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.