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
1332 3' -61.9 NC_001335.1 + 49350 0.67 0.315356
Target:  5'- gGCAGUCCCacGCGCUGUaaCCAGGGa- -3'
miRNA:   3'- gUGUCGGGG--UGCGGCAgcGGUCCUgc -5'
1332 3' -61.9 NC_001335.1 + 2792 0.67 0.307985
Target:  5'- gACGGCCgCACGCaccaGcUCGUCAaGGACa -3'
miRNA:   3'- gUGUCGGgGUGCGg---C-AGCGGU-CCUGc -5'
1332 3' -61.9 NC_001335.1 + 688 0.68 0.293641
Target:  5'- gCGCuGCaCUCACGCCGgauuucaGCCucuGGACGa -3'
miRNA:   3'- -GUGuCG-GGGUGCGGCag-----CGGu--CCUGC- -5'
1332 3' -61.9 NC_001335.1 + 7063 0.68 0.265877
Target:  5'- -uCAGCCgcguggaucaccgUCGCgGCCGUCaGCCAGGACc -3'
miRNA:   3'- guGUCGG-------------GGUG-CGGCAG-CGGUCCUGc -5'
1332 3' -61.9 NC_001335.1 + 37900 0.68 0.260075
Target:  5'- -cCGGCgUCGuCGCCGUCgGCCAGGAg- -3'
miRNA:   3'- guGUCGgGGU-GCGGCAG-CGGUCCUgc -5'
1332 3' -61.9 NC_001335.1 + 25908 0.74 0.099019
Target:  5'- gACGGCCUgACGCuCGUCGCCAcGGuCGc -3'
miRNA:   3'- gUGUCGGGgUGCG-GCAGCGGU-CCuGC- -5'
1332 3' -61.9 NC_001335.1 + 42043 0.77 0.063784
Target:  5'- --gAGUCCCACGCCuUCGCCAGGGUGg -3'
miRNA:   3'- gugUCGGGGUGCGGcAGCGGUCCUGC- -5'
1332 3' -61.9 NC_001335.1 + 32921 0.67 0.307985
Target:  5'- gCGguGCUCCACgGUCGUCG-UAGGACa -3'
miRNA:   3'- -GUguCGGGGUG-CGGCAGCgGUCCUGc -5'
1332 3' -61.9 NC_001335.1 + 22779 0.66 0.399785
Target:  5'- gACAGCCaCCgacuaccagaagaugACGuuGgUCGUCGGGACu -3'
miRNA:   3'- gUGUCGG-GG---------------UGCggC-AGCGGUCCUGc -5'
1332 3' -61.9 NC_001335.1 + 23091 0.66 0.369807
Target:  5'- aACGGCCCCGUGCUG--GCCAcauggucGGACGa -3'
miRNA:   3'- gUGUCGGGGUGCGGCagCGGU-------CCUGC- -5'
1332 3' -61.9 NC_001335.1 + 28082 0.66 0.362351
Target:  5'- gGCAGUCCuCGgGgaCGUUGUCGGGGCGu -3'
miRNA:   3'- gUGUCGGG-GUgCg-GCAGCGGUCCUGC- -5'
1332 3' -61.9 NC_001335.1 + 25790 0.67 0.322858
Target:  5'- uGCAGCggucggaaCCCuCGCCGUCGgCGGGcugGCGu -3'
miRNA:   3'- gUGUCG--------GGGuGCGGCAGCgGUCC---UGC- -5'
1332 3' -61.9 NC_001335.1 + 39727 0.67 0.34616
Target:  5'- -uCAGCgCCGCGagCGcCGCCGuGGACGa -3'
miRNA:   3'- guGUCGgGGUGCg-GCaGCGGU-CCUGC- -5'
1332 3' -61.9 NC_001335.1 + 51833 0.66 0.387608
Target:  5'- ---cGCCCCGuCGCUGUCGCUGgucucGGugGc -3'
miRNA:   3'- guguCGGGGU-GCGGCAGCGGU-----CCugC- -5'
1332 3' -61.9 NC_001335.1 + 36836 0.66 0.379062
Target:  5'- gGCGGUUCCuggaGCCGcugCGCCAGGucuACGa -3'
miRNA:   3'- gUGUCGGGGug--CGGCa--GCGGUCC---UGC- -5'
1332 3' -61.9 NC_001335.1 + 45489 0.67 0.34616
Target:  5'- gACgAG-CCCGCGCCGuUCGagCAGGAUGa -3'
miRNA:   3'- gUG-UCgGGGUGCGGC-AGCg-GUCCUGC- -5'
1332 3' -61.9 NC_001335.1 + 20341 0.67 0.314613
Target:  5'- aCACAucgacGCCcucgaCCugGCCGUCGCCGgccaguuGGACc -3'
miRNA:   3'- -GUGU-----CGG-----GGugCGGCAGCGGU-------CCUGc -5'
1332 3' -61.9 NC_001335.1 + 1900 1.08 0.000253
Target:  5'- cCACAGCCCCACGCCGUCGCCAGGACGg -3'
miRNA:   3'- -GUGUCGGGGUGCGGCAGCGGUCCUGC- -5'
1332 3' -61.9 NC_001335.1 + 23820 0.77 0.065577
Target:  5'- cCACcucuGCCCCA-GCCGUCaGCCAGGGCc -3'
miRNA:   3'- -GUGu---CGGGGUgCGGCAG-CGGUCCUGc -5'
1332 3' -61.9 NC_001335.1 + 24159 0.72 0.140468
Target:  5'- -cCAGCCCC--GCCGcCGCCAGGAg- -3'
miRNA:   3'- guGUCGGGGugCGGCaGCGGUCCUgc -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.