miRNA display CGI


Results 1 - 19 of 19 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
1507 3' -61.5 NC_001335.1 + 8725 0.66 0.402134
Target:  5'- cUCUUCGUCaGCCUcgUCGGCAuCGCcgagGCGg- -3'
miRNA:   3'- -AGAAGCGG-CGGG--AGCCGU-GCG----CGCag -5'
1507 3' -61.5 NC_001335.1 + 16537 0.66 0.393337
Target:  5'- uUCUUCacggGCCucgGCCCUgugcucgcuacCGGCACGCagGCGUUc -3'
miRNA:   3'- -AGAAG----CGG---CGGGA-----------GCCGUGCG--CGCAG- -5'
1507 3' -61.5 NC_001335.1 + 11646 0.66 0.393337
Target:  5'- aUCUUCGUgG-CCUCGGCGgaaaccgucCGUGCGa- -3'
miRNA:   3'- -AGAAGCGgCgGGAGCCGU---------GCGCGCag -5'
1507 3' -61.5 NC_001335.1 + 41486 0.66 0.393337
Target:  5'- gUCUgCGCCgGCCC-CGGCAC-CGggaaGUCg -3'
miRNA:   3'- -AGAaGCGG-CGGGaGCCGUGcGCg---CAG- -5'
1507 3' -61.5 NC_001335.1 + 50823 0.66 0.359423
Target:  5'- ---gCGCCGCCCcCGGCcgACGaCuCGUCg -3'
miRNA:   3'- agaaGCGGCGGGaGCCG--UGC-GcGCAG- -5'
1507 3' -61.5 NC_001335.1 + 48994 0.67 0.35127
Target:  5'- gCUUCGuuGCCgUCGGCca--GCGUUg -3'
miRNA:   3'- aGAAGCggCGGgAGCCGugcgCGCAG- -5'
1507 3' -61.5 NC_001335.1 + 1708 0.67 0.34325
Target:  5'- ----aGCCGgCCUCGGCAUGUacgGCGg- -3'
miRNA:   3'- agaagCGGCgGGAGCCGUGCG---CGCag -5'
1507 3' -61.5 NC_001335.1 + 20862 0.67 0.342455
Target:  5'- aUCUUCGCgccaaaGCCCUacgGGCACuGCuggaucggagaucGCGUCg -3'
miRNA:   3'- -AGAAGCGg-----CGGGAg--CCGUG-CG-------------CGCAG- -5'
1507 3' -61.5 NC_001335.1 + 32618 0.67 0.335361
Target:  5'- ---cCGCCGCCgUUGGC-CGgCGCGg- -3'
miRNA:   3'- agaaGCGGCGGgAGCCGuGC-GCGCag -5'
1507 3' -61.5 NC_001335.1 + 5491 0.67 0.335361
Target:  5'- ---cCGCCGCCC-CGGCACuGCugggcauCGUCc -3'
miRNA:   3'- agaaGCGGCGGGaGCCGUG-CGc------GCAG- -5'
1507 3' -61.5 NC_001335.1 + 46106 0.67 0.312498
Target:  5'- cUUUUcCGCCGUgCUCGGCgAUGUGCGc- -3'
miRNA:   3'- -AGAA-GCGGCGgGAGCCG-UGCGCGCag -5'
1507 3' -61.5 NC_001335.1 + 44825 0.68 0.305144
Target:  5'- aUUUUGCCGCucauguuucCCUCcaugagaaaGGUGCGUGCGUCu -3'
miRNA:   3'- aGAAGCGGCG---------GGAG---------CCGUGCGCGCAG- -5'
1507 3' -61.5 NC_001335.1 + 5704 0.68 0.297924
Target:  5'- ---gUGCCGUCCUUGcGCugGCuGCGUa -3'
miRNA:   3'- agaaGCGGCGGGAGC-CGugCG-CGCAg -5'
1507 3' -61.5 NC_001335.1 + 50264 0.68 0.297924
Target:  5'- --gUUGCCGCCCUUGGUgACGUGgaCGUa -3'
miRNA:   3'- agaAGCGGCGGGAGCCG-UGCGC--GCAg -5'
1507 3' -61.5 NC_001335.1 + 10755 0.68 0.283882
Target:  5'- aUUUCGCCGCgUgcuaggCGGCGucggaGCGCGUUg -3'
miRNA:   3'- aGAAGCGGCGgGa-----GCCGUg----CGCGCAG- -5'
1507 3' -61.5 NC_001335.1 + 24431 0.69 0.244902
Target:  5'- -gUUCGCCGCUCa-GGCAgGUGCGa- -3'
miRNA:   3'- agAAGCGGCGGGagCCGUgCGCGCag -5'
1507 3' -61.5 NC_001335.1 + 20538 0.7 0.227135
Target:  5'- --cUCGCCGCgCUCGGCGCGgucgguggaGCGa- -3'
miRNA:   3'- agaAGCGGCGgGAGCCGUGCg--------CGCag -5'
1507 3' -61.5 NC_001335.1 + 795 0.79 0.048655
Target:  5'- gCUgCGCCGCCUUCGGCAUGUuCGUCc -3'
miRNA:   3'- aGAaGCGGCGGGAGCCGUGCGcGCAG- -5'
1507 3' -61.5 NC_001335.1 + 39230 1.08 0.000287
Target:  5'- cUCUUCGCCGCCCUCGGCACGCGCGUCc -3'
miRNA:   3'- -AGAAGCGGCGGGAGCCGUGCGCGCAG- -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.