miRNA display CGI


Results 1 - 13 of 13 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
12463 3' -55.6 NC_003324.1 + 38737 0.66 0.709525
Target:  5'- aGGCgCGCUUGGccucUGAAAUCGGgcGGCc -3'
miRNA:   3'- gCUG-GCGGACC----ACUUUGGUCuaCCGc -5'
12463 3' -55.6 NC_003324.1 + 24025 0.66 0.709525
Target:  5'- gCGugCGCUUGGaGA----AGAUGGCGg -3'
miRNA:   3'- -GCugGCGGACCaCUuuggUCUACCGC- -5'
12463 3' -55.6 NC_003324.1 + 31018 0.66 0.688066
Target:  5'- uCGAUCGCUUGGUaGcGACCGGcgcggucGGCGu -3'
miRNA:   3'- -GCUGGCGGACCA-CuUUGGUCua-----CCGC- -5'
12463 3' -55.6 NC_003324.1 + 29471 0.67 0.677251
Target:  5'- aCGGCCGCCUGGcUGcGGGCgCGucgGGCGc -3'
miRNA:   3'- -GCUGGCGGACC-AC-UUUG-GUcuaCCGC- -5'
12463 3' -55.6 NC_003324.1 + 49148 0.67 0.666394
Target:  5'- uCGGCC-CC-GGUGcaGAGCCGGAUGGa- -3'
miRNA:   3'- -GCUGGcGGaCCAC--UUUGGUCUACCgc -5'
12463 3' -55.6 NC_003324.1 + 18305 0.67 0.654416
Target:  5'- -cGCUGCCccggccuUGGUGAGACCgccaaAGcgGGCGc -3'
miRNA:   3'- gcUGGCGG-------ACCACUUUGG-----UCuaCCGC- -5'
12463 3' -55.6 NC_003324.1 + 49107 0.69 0.557704
Target:  5'- -cGCUGCC-GGUGAcgcgaucGCCaAGAUGGCGg -3'
miRNA:   3'- gcUGGCGGaCCACUu------UGG-UCUACCGC- -5'
12463 3' -55.6 NC_003324.1 + 20734 0.69 0.540642
Target:  5'- -cGCCGCCUGGUcgaagcacuccgcccGAAGCCAaagGGCa -3'
miRNA:   3'- gcUGGCGGACCA---------------CUUUGGUcuaCCGc -5'
12463 3' -55.6 NC_003324.1 + 54806 0.69 0.515394
Target:  5'- aGACCGCCgcgccguucgcGGUGAGACCGGcagGGa- -3'
miRNA:   3'- gCUGGCGGa----------CCACUUUGGUCua-CCgc -5'
12463 3' -55.6 NC_003324.1 + 44636 0.7 0.452622
Target:  5'- uGACUGCCcaugcgaugccgGGUGu--CCAGAUGGUGu -3'
miRNA:   3'- gCUGGCGGa-----------CCACuuuGGUCUACCGC- -5'
12463 3' -55.6 NC_003324.1 + 39810 0.72 0.361821
Target:  5'- aGGCCGCCaugUGGUGGcugcagaaccgcaGGCCGGGcacaUGGCGc -3'
miRNA:   3'- gCUGGCGG---ACCACU-------------UUGGUCU----ACCGC- -5'
12463 3' -55.6 NC_003324.1 + 27185 0.74 0.291663
Target:  5'- gCGACCGCgCUGGUGugcugcGCCAGAUG-Ca -3'
miRNA:   3'- -GCUGGCG-GACCACuu----UGGUCUACcGc -5'
12463 3' -55.6 NC_003324.1 + 38490 1.1 0.000936
Target:  5'- cCGACCGCCUGGUGAAACCAGAUGGCGa -3'
miRNA:   3'- -GCUGGCGGACCACUUUGGUCUACCGC- -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.