miRNA display CGI


Results 1 - 20 of 31 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
27019 3' -53.5 NC_005832.1 + 2154 1.09 0.003241
Target:  5'- aGACCCCAGGACCGUCUUAAAGUCCGAg -3'
miRNA:   3'- -CUGGGGUCCUGGCAGAAUUUCAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 75750 0.74 0.554449
Target:  5'- cACCgCCAGGGCCGU---GAGGUCCGc -3'
miRNA:   3'- cUGG-GGUCCUGGCAgaaUUUCAGGCu -5'
27019 3' -53.5 NC_005832.1 + 78772 0.73 0.585894
Target:  5'- aACCCCGGGAUgGUUUUGAugaaaGGUCCa- -3'
miRNA:   3'- cUGGGGUCCUGgCAGAAUU-----UCAGGcu -5'
27019 3' -53.5 NC_005832.1 + 20110 0.73 0.596458
Target:  5'- cGAUCCuCAGGACCGcCUgcaUGAcGUCCGGg -3'
miRNA:   3'- -CUGGG-GUCCUGGCaGA---AUUuCAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 96941 0.71 0.68127
Target:  5'- -uUCCCAGGAgCC-UCUUGAAGcCCGAc -3'
miRNA:   3'- cuGGGGUCCU-GGcAGAAUUUCaGGCU- -5'
27019 3' -53.5 NC_005832.1 + 16625 0.71 0.712612
Target:  5'- uGGCUCCAGGACCGUgUUG----CCGAc -3'
miRNA:   3'- -CUGGGGUCCUGGCAgAAUuucaGGCU- -5'
27019 3' -53.5 NC_005832.1 + 72687 0.71 0.712612
Target:  5'- gGGCCCCacguccccacgGGGACCGUCUacgcGUCCa- -3'
miRNA:   3'- -CUGGGG-----------UCCUGGCAGAauuuCAGGcu -5'
27019 3' -53.5 NC_005832.1 + 73096 0.69 0.810726
Target:  5'- gGGCCCCgAGGACCc---UGGGGUCCGu -3'
miRNA:   3'- -CUGGGG-UCCUGGcagaAUUUCAGGCu -5'
27019 3' -53.5 NC_005832.1 + 98326 0.69 0.814352
Target:  5'- gGGCCUCGGGucaguuaggcaaacuGCCGUCUcc--GUCCGAc -3'
miRNA:   3'- -CUGGGGUCC---------------UGGCAGAauuuCAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 54146 0.69 0.819738
Target:  5'- uGCCCgAGGACCuGUacgUGAcgGGUCCGGc -3'
miRNA:   3'- cUGGGgUCCUGG-CAga-AUU--UCAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 5659 0.69 0.819738
Target:  5'- cGACgCCCGGGACCcGUCggu-GGuUCUGAg -3'
miRNA:   3'- -CUG-GGGUCCUGG-CAGaauuUC-AGGCU- -5'
27019 3' -53.5 NC_005832.1 + 87633 0.69 0.828566
Target:  5'- aGGCCCCgcAGGACgggaUGUCUuuUGAGGUCCc- -3'
miRNA:   3'- -CUGGGG--UCCUG----GCAGA--AUUUCAGGcu -5'
27019 3' -53.5 NC_005832.1 + 6811 0.68 0.836348
Target:  5'- aACCCCAGGGaggUGUUUUuucacgcAAAGUCCGGc -3'
miRNA:   3'- cUGGGGUCCUg--GCAGAA-------UUUCAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 77069 0.68 0.837203
Target:  5'- cGCCCCAGucACCGUCUgacgggccugGAAG-CCGAg -3'
miRNA:   3'- cUGGGGUCc-UGGCAGAa---------UUUCaGGCU- -5'
27019 3' -53.5 NC_005832.1 + 4625 0.68 0.837203
Target:  5'- cGACCCCAGGAUgGgaUCggcgGGGG-CCGAc -3'
miRNA:   3'- -CUGGGGUCCUGgC--AGaa--UUUCaGGCU- -5'
27019 3' -53.5 NC_005832.1 + 72868 0.68 0.86029
Target:  5'- gGGCCCCuGGGACCcGUCUUGcccaacggcccGUCCGc -3'
miRNA:   3'- -CUGGGG-UCCUGG-CAGAAUuu---------CAGGCu -5'
27019 3' -53.5 NC_005832.1 + 54117 0.68 0.86966
Target:  5'- aGCUCCAGGGCCaugaagGUCUUgccGAAG-CCGGg -3'
miRNA:   3'- cUGGGGUCCUGG------CAGAA---UUUCaGGCU- -5'
27019 3' -53.5 NC_005832.1 + 49631 0.68 0.877216
Target:  5'- cACCCUcuuuGGGACCaUCcUAGAGUCCa- -3'
miRNA:   3'- cUGGGG----UCCUGGcAGaAUUUCAGGcu -5'
27019 3' -53.5 NC_005832.1 + 80893 0.67 0.884536
Target:  5'- aGGCCCCGGGACCcUUUg-----CCGAa -3'
miRNA:   3'- -CUGGGGUCCUGGcAGAauuucaGGCU- -5'
27019 3' -53.5 NC_005832.1 + 56442 0.67 0.891616
Target:  5'- -uCCCCAGG-CCGUCaagaUAGAgggcuucucGUCCGAc -3'
miRNA:   3'- cuGGGGUCCuGGCAGa---AUUU---------CAGGCU- -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.