miRNA display CGI


Results 1 - 20 of 29 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
1558 3' -55.3 NC_001347.2 + 128671 0.66 0.966672
Target:  5'- -cCGUGCCGCCG-GCGac-CGCcgUCUGa -3'
miRNA:   3'- caGCACGGCGGUuUGCguaGCG--AGAC- -5'
1558 3' -55.3 NC_001347.2 + 89094 0.66 0.966672
Target:  5'- -gUGUGCgGCCAcGCacuGCGUCGUUCg- -3'
miRNA:   3'- caGCACGgCGGUuUG---CGUAGCGAGac -5'
1558 3' -55.3 NC_001347.2 + 93195 0.66 0.956419
Target:  5'- uUUG-GgCGCCGAGCGC-UCGCgCUGg -3'
miRNA:   3'- cAGCaCgGCGGUUUGCGuAGCGaGAC- -5'
1558 3' -55.3 NC_001347.2 + 106002 0.66 0.952571
Target:  5'- -aCGUGUCGCCcGACGacgagAUCGCgcggCUGu -3'
miRNA:   3'- caGCACGGCGGuUUGCg----UAGCGa---GAC- -5'
1558 3' -55.3 NC_001347.2 + 94006 0.66 0.952571
Target:  5'- --gGUGCUGCCGGucGCGCuuauUCGCUUc- -3'
miRNA:   3'- cagCACGGCGGUU--UGCGu---AGCGAGac -5'
1558 3' -55.3 NC_001347.2 + 108156 0.67 0.948501
Target:  5'- -gCGgcgGCCGCagaGGGCGCGcCGCUCa- -3'
miRNA:   3'- caGCa--CGGCGg--UUUGCGUaGCGAGac -5'
1558 3' -55.3 NC_001347.2 + 85665 0.67 0.939682
Target:  5'- cGUCGUGCCuCCGca-GCA-CGUUCUGc -3'
miRNA:   3'- -CAGCACGGcGGUuugCGUaGCGAGAC- -5'
1558 3' -55.3 NC_001347.2 + 202992 0.67 0.93493
Target:  5'- cGUCGcUGCUGaCGAACGCGUCugGCUgUGu -3'
miRNA:   3'- -CAGC-ACGGCgGUUUGCGUAG--CGAgAC- -5'
1558 3' -55.3 NC_001347.2 + 64852 0.67 0.929947
Target:  5'- ----aGUCGCCGucaGCGUCGCUCUa -3'
miRNA:   3'- cagcaCGGCGGUuugCGUAGCGAGAc -5'
1558 3' -55.3 NC_001347.2 + 148929 0.67 0.929947
Target:  5'- -aCGUGUCGCC--GCGCuAUCGUcagcaUCUGg -3'
miRNA:   3'- caGCACGGCGGuuUGCG-UAGCG-----AGAC- -5'
1558 3' -55.3 NC_001347.2 + 24354 0.67 0.929947
Target:  5'- -cCGUGCUggGCUGggUGCAUCGCUUc- -3'
miRNA:   3'- caGCACGG--CGGUuuGCGUAGCGAGac -5'
1558 3' -55.3 NC_001347.2 + 193137 0.67 0.924732
Target:  5'- cGUCGUcGCCGCCGucGCGCcuuccUC-CUCUGc -3'
miRNA:   3'- -CAGCA-CGGCGGUu-UGCGu----AGcGAGAC- -5'
1558 3' -55.3 NC_001347.2 + 86198 0.67 0.924732
Target:  5'- aGUCGUccgaGCCGCCGugccggucguCGCAcCGCUCg- -3'
miRNA:   3'- -CAGCA----CGGCGGUuu--------GCGUaGCGAGac -5'
1558 3' -55.3 NC_001347.2 + 151073 0.68 0.919286
Target:  5'- ----cGCCGCCAGcaucacGCGCAUCGgUCg- -3'
miRNA:   3'- cagcaCGGCGGUU------UGCGUAGCgAGac -5'
1558 3' -55.3 NC_001347.2 + 210153 0.68 0.919286
Target:  5'- uUCGUGCCGUCGc-CGCAcugCGUUCUc -3'
miRNA:   3'- cAGCACGGCGGUuuGCGUa--GCGAGAc -5'
1558 3' -55.3 NC_001347.2 + 200437 0.68 0.910092
Target:  5'- -cUGUGuuGCCAGACGCgccuggccuucguggGUCGCUUcgUGa -3'
miRNA:   3'- caGCACggCGGUUUGCG---------------UAGCGAG--AC- -5'
1558 3' -55.3 NC_001347.2 + 88242 0.68 0.901567
Target:  5'- gGUCGcUGCCGCCGgugaagagAGCGCggCGUacgCUGg -3'
miRNA:   3'- -CAGC-ACGGCGGU--------UUGCGuaGCGa--GAC- -5'
1558 3' -55.3 NC_001347.2 + 106286 0.68 0.901567
Target:  5'- ---aUGCCGCCGccAACGCcgaGCUCUGu -3'
miRNA:   3'- cagcACGGCGGU--UUGCGuagCGAGAC- -5'
1558 3' -55.3 NC_001347.2 + 75858 0.69 0.874806
Target:  5'- cGUCG-GCCGCgGGGCGCAgCGC-CUc -3'
miRNA:   3'- -CAGCaCGGCGgUUUGCGUaGCGaGAc -5'
1558 3' -55.3 NC_001347.2 + 22189 0.69 0.867579
Target:  5'- aUCGUGCCGCUccauCGCAgccaCGCgCUGg -3'
miRNA:   3'- cAGCACGGCGGuuu-GCGUa---GCGaGAC- -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.