miRNA display CGI


Results 1 - 20 of 21 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
16233 3' -54.7 NC_004065.1 + 201319 0.65 0.981202
Target:  5'- gGACAGGaUCuccgcccuGCCGGGAcGUGAGauccacgcgaacuGCUGc -3'
miRNA:   3'- gCUGUCC-AG--------UGGCCCUaCACUU-------------CGAC- -5'
16233 3' -54.7 NC_004065.1 + 184874 0.65 0.980792
Target:  5'- gCGGCGGGaCGCCGGGAacgagagaggaucgGGAGCg- -3'
miRNA:   3'- -GCUGUCCaGUGGCCCUaca-----------CUUCGac -5'
16233 3' -54.7 NC_004065.1 + 136150 0.66 0.9793
Target:  5'- gGACAGGg-ACCGGGAgcucgGggaggGAAGCc- -3'
miRNA:   3'- gCUGUCCagUGGCCCUa----Ca----CUUCGac -5'
16233 3' -54.7 NC_004065.1 + 136182 0.66 0.9793
Target:  5'- gGACAGGg-ACCGGGAgcucgGggaggGAAGCc- -3'
miRNA:   3'- gCUGUCCagUGGCCCUa----Ca----CUUCGac -5'
16233 3' -54.7 NC_004065.1 + 56611 0.66 0.9793
Target:  5'- gCGAgCAGGcgGCCGcGGAUGUGGAuGCg- -3'
miRNA:   3'- -GCU-GUCCagUGGC-CCUACACUU-CGac -5'
16233 3' -54.7 NC_004065.1 + 193341 0.66 0.979081
Target:  5'- gCGACAGGuaucuucUCACCGGGGcuUGUGucuauauauGCg- -3'
miRNA:   3'- -GCUGUCC-------AGUGGCCCU--ACACuu-------CGac -5'
16233 3' -54.7 NC_004065.1 + 226124 0.66 0.974568
Target:  5'- aGGCggGGGUCGCCGc-GUG-GAGGCUGg -3'
miRNA:   3'- gCUG--UCCAGUGGCccUACaCUUCGAC- -5'
16233 3' -54.7 NC_004065.1 + 169857 0.66 0.974568
Target:  5'- gCGACGGGUU-CgGGGAcgGUGAcgGGCUc -3'
miRNA:   3'- -GCUGUCCAGuGgCCCUa-CACU--UCGAc -5'
16233 3' -54.7 NC_004065.1 + 58896 0.66 0.969093
Target:  5'- uGAC-GGUCuggacgaugagcGCgGGGGUGggcagGAAGCUGa -3'
miRNA:   3'- gCUGuCCAG------------UGgCCCUACa----CUUCGAC- -5'
16233 3' -54.7 NC_004065.1 + 185743 0.67 0.962826
Target:  5'- aGGCGGaUCgACCGGGcccacAUGUGggGCg- -3'
miRNA:   3'- gCUGUCcAG-UGGCCC-----UACACuuCGac -5'
16233 3' -54.7 NC_004065.1 + 221772 0.67 0.962491
Target:  5'- gCGACGGuaucgucugcguuGUCgggGCCGGGAaaaagaguUGUGggGCUa -3'
miRNA:   3'- -GCUGUC-------------CAG---UGGCCCU--------ACACuuCGAc -5'
16233 3' -54.7 NC_004065.1 + 28392 0.67 0.959382
Target:  5'- --cCGGGaCACCGGGGUGUuccacGggGCg- -3'
miRNA:   3'- gcuGUCCaGUGGCCCUACA-----CuuCGac -5'
16233 3' -54.7 NC_004065.1 + 19754 0.67 0.955725
Target:  5'- aGACGGGggcgUGCgGGGGUGUG-GGCg- -3'
miRNA:   3'- gCUGUCCa---GUGgCCCUACACuUCGac -5'
16233 3' -54.7 NC_004065.1 + 28548 0.68 0.938889
Target:  5'- cCGuCGGGUCgACCGGGAUcucgcggGGAGCg- -3'
miRNA:   3'- -GCuGUCCAG-UGGCCCUAca-----CUUCGac -5'
16233 3' -54.7 NC_004065.1 + 136246 0.68 0.923878
Target:  5'- gGACAGGa-ACCGGGAgcggGgcGCUGg -3'
miRNA:   3'- gCUGUCCagUGGCCCUaca-CuuCGAC- -5'
16233 3' -54.7 NC_004065.1 + 185490 0.68 0.923878
Target:  5'- aGAUgAGGaCACCGGGAcagGUGcuGCUGa -3'
miRNA:   3'- gCUG-UCCaGUGGCCCUa--CACuuCGAC- -5'
16233 3' -54.7 NC_004065.1 + 199891 0.71 0.842974
Target:  5'- gCGGCcGGUCGCCcuccccgGGGGUGUGuAGCa- -3'
miRNA:   3'- -GCUGuCCAGUGG-------CCCUACACuUCGac -5'
16233 3' -54.7 NC_004065.1 + 77423 0.71 0.82758
Target:  5'- gGAgAGGUCGcgcaggaucuCCGGGGUGgugaggggGGAGCUGu -3'
miRNA:   3'- gCUgUCCAGU----------GGCCCUACa-------CUUCGAC- -5'
16233 3' -54.7 NC_004065.1 + 175764 0.73 0.737662
Target:  5'- aCGACcGGUCGCCGGacgggagaugacGAUGUGu-GCUGa -3'
miRNA:   3'- -GCUGuCCAGUGGCC------------CUACACuuCGAC- -5'
16233 3' -54.7 NC_004065.1 + 33568 0.77 0.529777
Target:  5'- aCGAUcucgAGGUCGugucCCGGGAUGcgGAGGCUGg -3'
miRNA:   3'- -GCUG----UCCAGU----GGCCCUACa-CUUCGAC- -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.