miRNA display CGI


Results 1 - 16 of 16 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
12560 3' -55.6 NC_003345.1 + 48688 0.66 0.804244
Target:  5'- gAGUGAaCGGCuGGCCGGggcgguUCAUCGGGu -3'
miRNA:   3'- gUCAUU-GCCGcUUGGCC------GGUAGCCUg -5'
12560 3' -55.6 NC_003345.1 + 26558 0.66 0.794865
Target:  5'- uGGUAGCGGCGGAggugggUCGGCauccaGUCGuACu -3'
miRNA:   3'- gUCAUUGCCGCUU------GGCCGg----UAGCcUG- -5'
12560 3' -55.6 NC_003345.1 + 11630 0.66 0.794865
Target:  5'- cCGGUGuuccuCGGgGAA-CGG-CAUCGGACg -3'
miRNA:   3'- -GUCAUu----GCCgCUUgGCCgGUAGCCUG- -5'
12560 3' -55.6 NC_003345.1 + 50353 0.66 0.785325
Target:  5'- uGGUGGCGGUGGagguGCUGGCgGcuccuUCGGGg -3'
miRNA:   3'- gUCAUUGCCGCU----UGGCCGgU-----AGCCUg -5'
12560 3' -55.6 NC_003345.1 + 36825 0.66 0.775635
Target:  5'- uGGUAGuucacgccgUGGU-AGCCGGUCGUCGGAa -3'
miRNA:   3'- gUCAUU---------GCCGcUUGGCCGGUAGCCUg -5'
12560 3' -55.6 NC_003345.1 + 60278 0.66 0.775635
Target:  5'- cCGGUGcugguGCGGCGuucAUCGGCC-UCGGu- -3'
miRNA:   3'- -GUCAU-----UGCCGCu--UGGCCGGuAGCCug -5'
12560 3' -55.6 NC_003345.1 + 36331 0.66 0.775635
Target:  5'- aUAGaGACGGCGAAggaaUGGCuCGcUCGGGCc -3'
miRNA:   3'- -GUCaUUGCCGCUUg---GCCG-GU-AGCCUG- -5'
12560 3' -55.6 NC_003345.1 + 33181 0.66 0.765803
Target:  5'- uCGGUuuccucCGGCGggUUGGCgGUCGGcCc -3'
miRNA:   3'- -GUCAuu----GCCGCuuGGCCGgUAGCCuG- -5'
12560 3' -55.6 NC_003345.1 + 54045 0.66 0.765803
Target:  5'- ---cGGCGGCGAgaACCGcgaGUCGGACg -3'
miRNA:   3'- gucaUUGCCGCU--UGGCcggUAGCCUG- -5'
12560 3' -55.6 NC_003345.1 + 63669 0.67 0.745761
Target:  5'- gAGUGGgGGCGcuCCuGCCgacgugggacucGUCGGACa -3'
miRNA:   3'- gUCAUUgCCGCuuGGcCGG------------UAGCCUG- -5'
12560 3' -55.6 NC_003345.1 + 71005 0.67 0.739659
Target:  5'- gCAGUAAacuccagaugagcguCGGuCGaAACCGGCU-UCGGGCu -3'
miRNA:   3'- -GUCAUU---------------GCC-GC-UUGGCCGGuAGCCUG- -5'
12560 3' -55.6 NC_003345.1 + 8166 0.67 0.735571
Target:  5'- -----cCGGaUGAACCgGGUCGUCGGGCu -3'
miRNA:   3'- gucauuGCC-GCUUGG-CCGGUAGCCUG- -5'
12560 3' -55.6 NC_003345.1 + 55759 0.67 0.704453
Target:  5'- --cUGACGGCGGAUaCGGUCA-CGGAa -3'
miRNA:   3'- gucAUUGCCGCUUG-GCCGGUaGCCUg -5'
12560 3' -55.6 NC_003345.1 + 40060 0.68 0.651386
Target:  5'- ---cAGCGGCucGAACgCGGCuCGUCGGAg -3'
miRNA:   3'- gucaUUGCCG--CUUG-GCCG-GUAGCCUg -5'
12560 3' -55.6 NC_003345.1 + 68405 0.71 0.483852
Target:  5'- aAGUGgacgGCGGCGAGCgGGUucguCAUCGaGACa -3'
miRNA:   3'- gUCAU----UGCCGCUUGgCCG----GUAGC-CUG- -5'
12560 3' -55.6 NC_003345.1 + 44957 1.09 0.001504
Target:  5'- gCAGUAACGGCGAACCGGCCAUCGGACu -3'
miRNA:   3'- -GUCAUUGCCGCUUGGCCGGUAGCCUG- -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.