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
1508 5' -56.6 NC_001335.1 + 15124 0.66 0.645633
Target:  5'- uUCAGCUCGaCGgUCAcaUCGUCggaCagGCCGa -3'
miRNA:   3'- -AGUCGAGC-GCgAGU--AGCAG---GagUGGC- -5'
1508 5' -56.6 NC_001335.1 + 16189 0.66 0.645633
Target:  5'- gCAGCUC-CGCUgGUCGgcaUCgUgGCCGg -3'
miRNA:   3'- aGUCGAGcGCGAgUAGC---AGgAgUGGC- -5'
1508 5' -56.6 NC_001335.1 + 34014 0.66 0.645633
Target:  5'- -gGGCUCGCuucuGCUUGggcaUGUCCUCGCgGg -3'
miRNA:   3'- agUCGAGCG----CGAGUa---GCAGGAGUGgC- -5'
1508 5' -56.6 NC_001335.1 + 18657 0.66 0.612867
Target:  5'- -aAGCUgGCGCUguUCGagUCCccCACCGu -3'
miRNA:   3'- agUCGAgCGCGAguAGC--AGGa-GUGGC- -5'
1508 5' -56.6 NC_001335.1 + 16908 0.67 0.5587
Target:  5'- aCAGCUCGCuCcCAUCGUCaCggcgcucaCGCCGg -3'
miRNA:   3'- aGUCGAGCGcGaGUAGCAG-Ga-------GUGGC- -5'
1508 5' -56.6 NC_001335.1 + 28992 0.68 0.526829
Target:  5'- aCAGCUCGCGgaCAUacUCCgCGCUGa -3'
miRNA:   3'- aGUCGAGCGCgaGUAgcAGGaGUGGC- -5'
1508 5' -56.6 NC_001335.1 + 31769 0.68 0.505963
Target:  5'- aCAGCUCGCGCUg-----CCUCGCgGg -3'
miRNA:   3'- aGUCGAGCGCGAguagcaGGAGUGgC- -5'
1508 5' -56.6 NC_001335.1 + 44274 0.68 0.495663
Target:  5'- cUCGGCUCGCaaagcuGUUCGcagacaaccUCGUCCacaccUCACCGc -3'
miRNA:   3'- -AGUCGAGCG------CGAGU---------AGCAGG-----AGUGGC- -5'
1508 5' -56.6 NC_001335.1 + 47118 0.71 0.330393
Target:  5'- -gAGCUgGuCGCUCAUCuUCUUCACCu -3'
miRNA:   3'- agUCGAgC-GCGAGUAGcAGGAGUGGc -5'
1508 5' -56.6 NC_001335.1 + 24816 0.72 0.299625
Target:  5'- gUCAGCgccucuacgUCGCGCUCAUCGgcugCCUuCugCu -3'
miRNA:   3'- -AGUCG---------AGCGCGAGUAGCa---GGA-GugGc -5'
1508 5' -56.6 NC_001335.1 + 12984 0.75 0.198633
Target:  5'- --cGCUCGCGCUCA-CGUCggcaUCACCa -3'
miRNA:   3'- aguCGAGCGCGAGUaGCAGg---AGUGGc -5'
1508 5' -56.6 NC_001335.1 + 17376 0.76 0.162846
Target:  5'- aUCGGCggCGCGCUCAUCGgcgcgcuggcgaaCCUCACgGa -3'
miRNA:   3'- -AGUCGa-GCGCGAGUAGCa------------GGAGUGgC- -5'
1508 5' -56.6 NC_001335.1 + 39401 1.1 0.000656
Target:  5'- gUCAGCUCGCGCUCAUCGUCCUCACCGa -3'
miRNA:   3'- -AGUCGAGCGCGAGUAGCAGGAGUGGC- -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.