miRNA display CGI


Results 1 - 20 of 28 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
28831 3' -56.2 NC_006146.1 + 75511 1.08 0.003229
Target:  5'- gCACCAGCGUGAGCUGCCUUCACCACAc -3'
miRNA:   3'- -GUGGUCGCACUCGACGGAAGUGGUGU- -5'
28831 3' -56.2 NC_006146.1 + 170089 0.75 0.406482
Target:  5'- gGCCGGCGgGAGggGCCggCGCCGCAg -3'
miRNA:   3'- gUGGUCGCaCUCgaCGGaaGUGGUGU- -5'
28831 3' -56.2 NC_006146.1 + 146835 0.72 0.588073
Target:  5'- gCGCCAGCGUaGAGCccggGCCUggcUCgggGCCGCGu -3'
miRNA:   3'- -GUGGUCGCA-CUCGa---CGGA---AG---UGGUGU- -5'
28831 3' -56.2 NC_006146.1 + 115125 0.71 0.617772
Target:  5'- gGCCAGCGUGGuggccucGCUGCCccuggccCGCCGCc -3'
miRNA:   3'- gUGGUCGCACU-------CGACGGaa-----GUGGUGu -5'
28831 3' -56.2 NC_006146.1 + 101840 0.71 0.659869
Target:  5'- gGCCcgAGCGcucGGGCUGCCg-CACCACGg -3'
miRNA:   3'- gUGG--UCGCa--CUCGACGGaaGUGGUGU- -5'
28831 3' -56.2 NC_006146.1 + 137799 0.7 0.680302
Target:  5'- cCGCCGGCGgccacccGGCUGCCccagaGCCGCAg -3'
miRNA:   3'- -GUGGUCGCac-----UCGACGGaag--UGGUGU- -5'
28831 3' -56.2 NC_006146.1 + 126196 0.7 0.700576
Target:  5'- gGCCAGCGgGGGCcacgGCCaccgcCGCCACAc -3'
miRNA:   3'- gUGGUCGCaCUCGa---CGGaa---GUGGUGU- -5'
28831 3' -56.2 NC_006146.1 + 38680 0.69 0.759708
Target:  5'- gGCC-GCGaGAGCUGCCUUaaagGCCugGa -3'
miRNA:   3'- gUGGuCGCaCUCGACGGAAg---UGGugU- -5'
28831 3' -56.2 NC_006146.1 + 167293 0.69 0.778607
Target:  5'- gGCCGGCGgGAGggGCCggCGCCuGCAg -3'
miRNA:   3'- gUGGUCGCaCUCgaCGGaaGUGG-UGU- -5'
28831 3' -56.2 NC_006146.1 + 168225 0.69 0.778607
Target:  5'- gGCCGGCGgGAGggGCCggCGCCuGCAg -3'
miRNA:   3'- gUGGUCGCaCUCgaCGGaaGUGG-UGU- -5'
28831 3' -56.2 NC_006146.1 + 169157 0.69 0.778607
Target:  5'- gGCCGGCGgGAGggGCCggCGCCuGCAg -3'
miRNA:   3'- gUGGUCGCaCUCgaCGGaaGUGG-UGU- -5'
28831 3' -56.2 NC_006146.1 + 47004 0.69 0.779539
Target:  5'- uCACCAGCGUccaGAGCggagacuacucucugGUCauagUCACCACGu -3'
miRNA:   3'- -GUGGUCGCA---CUCGa--------------CGGa---AGUGGUGU- -5'
28831 3' -56.2 NC_006146.1 + 60903 0.68 0.814748
Target:  5'- -cCCAGUGgauccagGAGCUGUUUcgCACCGCGg -3'
miRNA:   3'- guGGUCGCa------CUCGACGGAa-GUGGUGU- -5'
28831 3' -56.2 NC_006146.1 + 68115 0.68 0.814748
Target:  5'- gGCCAGCcgguccgcgGUGAGCggcGCCa-CGCCACGc -3'
miRNA:   3'- gUGGUCG---------CACUCGa--CGGaaGUGGUGU- -5'
28831 3' -56.2 NC_006146.1 + 77355 0.68 0.814748
Target:  5'- gGCCGGCuucGUGuGCUGCCUggaaCACAa -3'
miRNA:   3'- gUGGUCG---CACuCGACGGAagugGUGU- -5'
28831 3' -56.2 NC_006146.1 + 57935 0.68 0.814748
Target:  5'- gGCCGGCGccgccaUGGuGCUGCa-UCACCACu -3'
miRNA:   3'- gUGGUCGC------ACU-CGACGgaAGUGGUGu -5'
28831 3' -56.2 NC_006146.1 + 3684 0.68 0.823387
Target:  5'- -cCCAGCGUGGGgaGCaaagagCACCugGu -3'
miRNA:   3'- guGGUCGCACUCgaCGgaa---GUGGugU- -5'
28831 3' -56.2 NC_006146.1 + 137676 0.67 0.831851
Target:  5'- cCGCCGGCGgccacccGGCUGCCccggagCACCAgGa -3'
miRNA:   3'- -GUGGUCGCac-----UCGACGGaa----GUGGUgU- -5'
28831 3' -56.2 NC_006146.1 + 124171 0.67 0.840131
Target:  5'- gGCCAGCGUGGccuccGCccGCCUcggagcCGCCGCGg -3'
miRNA:   3'- gUGGUCGCACU-----CGa-CGGAa-----GUGGUGU- -5'
28831 3' -56.2 NC_006146.1 + 96703 0.67 0.848221
Target:  5'- aCACCGGUGUGuGGUUaGCCa-CACCAUAu -3'
miRNA:   3'- -GUGGUCGCAC-UCGA-CGGaaGUGGUGU- -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.