miRNA display CGI


Results 1 - 20 of 78 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
10725 5' -60.3 NC_002794.1 + 155923 1.13 0.00105
Target:  5'- cGGAGCCGGGUGCUUGCCGUCACCGGGg -3'
miRNA:   3'- -CCUCGGCCCACGAACGGCAGUGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 32592 0.81 0.149939
Target:  5'- cGGGGCCGGG-GCcgggGCCGggGCCGGGg -3'
miRNA:   3'- -CCUCGGCCCaCGaa--CGGCagUGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 137583 0.79 0.190403
Target:  5'- cGGGGCCGGaGUGCggggaGCCGcCGCCGGcGg -3'
miRNA:   3'- -CCUCGGCC-CACGaa---CGGCaGUGGCC-C- -5'
10725 5' -60.3 NC_002794.1 + 101591 0.78 0.224178
Target:  5'- -cGGCCGGGgggGCgggUGCCGgccCGCCGGGc -3'
miRNA:   3'- ccUCGGCCCa--CGa--ACGGCa--GUGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 121404 0.77 0.262908
Target:  5'- cGGcGCCGGGaccGCga-CCGUCGCCGGGa -3'
miRNA:   3'- -CCuCGGCCCa--CGaacGGCAGUGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 44238 0.75 0.31363
Target:  5'- cGGuGCCGGGcgGCUcggUGCCGggcggcucggcCGCCGGGg -3'
miRNA:   3'- -CCuCGGCCCa-CGA---ACGGCa----------GUGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 132577 0.75 0.341644
Target:  5'- aGGA-CCGGGUGg--GCCGcuUCACCGGGc -3'
miRNA:   3'- -CCUcGGCCCACgaaCGGC--AGUGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 145356 0.74 0.356315
Target:  5'- cGAGCUGGGgg--UGUgGUCACCGGGc -3'
miRNA:   3'- cCUCGGCCCacgaACGgCAGUGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 149215 0.74 0.394889
Target:  5'- cGGcuGGCCGGaagcgagGCgccgccGCCGUCGCCGGGg -3'
miRNA:   3'- -CC--UCGGCCca-----CGaa----CGGCAGUGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 186092 0.73 0.402922
Target:  5'- --cGCCGGGcGCUUcgucgccgucGCCGcCGCCGGGu -3'
miRNA:   3'- ccuCGGCCCaCGAA----------CGGCaGUGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 90379 0.73 0.411057
Target:  5'- aGGGCCGGGU-CUcGCCGUCcgcgAUCGGGc -3'
miRNA:   3'- cCUCGGCCCAcGAaCGGCAG----UGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 108848 0.73 0.411057
Target:  5'- cGAaCCGGGUGUguuggcgcGCgGUCACCGGGu -3'
miRNA:   3'- cCUcGGCCCACGaa------CGgCAGUGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 98948 0.73 0.419293
Target:  5'- aGGGGCUGGGgcucgUGCUgggcGCCGUCGgCGGc -3'
miRNA:   3'- -CCUCGGCCC-----ACGAa---CGGCAGUgGCCc -5'
10725 5' -60.3 NC_002794.1 + 50588 0.73 0.436062
Target:  5'- cGGcGGCUGGGUG---GCCGgCGCCGGGg -3'
miRNA:   3'- -CC-UCGGCCCACgaaCGGCaGUGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 119521 0.72 0.469837
Target:  5'- cGGAGCCGGccgcggaccccucGUcCgcgGCCGUCGCCGGc -3'
miRNA:   3'- -CCUCGGCC-------------CAcGaa-CGGCAGUGGCCc -5'
10725 5' -60.3 NC_002794.1 + 733 0.72 0.488567
Target:  5'- gGGGGCucuguuuucgCGGG-GCUcUGCCGUUuuGCCGGGc -3'
miRNA:   3'- -CCUCG----------GCCCaCGA-ACGGCAG--UGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 100818 0.72 0.488567
Target:  5'- cGuGCCGGGcgGCggggGCCGgcaGCCGGGc -3'
miRNA:   3'- cCuCGGCCCa-CGaa--CGGCag-UGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 116070 0.72 0.501247
Target:  5'- uGGGGUCGcGGaGCgcucggcgcggcgGUCGUCGCCGGGg -3'
miRNA:   3'- -CCUCGGC-CCaCGaa-----------CGGCAGUGGCCC- -5'
10725 5' -60.3 NC_002794.1 + 88747 0.71 0.53448
Target:  5'- cGGGGUCGccgaggaauguGGUGCcUGgCGUCGCCGGu -3'
miRNA:   3'- -CCUCGGC-----------CCACGaACgGCAGUGGCCc -5'
10725 5' -60.3 NC_002794.1 + 72932 0.71 0.543853
Target:  5'- cGGAGCCGGcGUccGCgcGCC--CACCGGGc -3'
miRNA:   3'- -CCUCGGCC-CA--CGaaCGGcaGUGGCCC- -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.