miRNA display CGI


Results 1 - 17 of 17 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
32015 5' -53.9 NC_006949.1 + 18853 0.66 0.78859
Target:  5'- -aGCGGCUGCCGUuuccguuaucCGCGAccGGAACc- -3'
miRNA:   3'- cgCGUCGGCGGCA----------GCGUUu-UCUUGcc -5'
32015 5' -53.9 NC_006949.1 + 19837 0.66 0.78859
Target:  5'- gGCGCuaucacuGCCGCUGcUGCGGcauGGAuuGCGGu -3'
miRNA:   3'- -CGCGu------CGGCGGCaGCGUUu--UCU--UGCC- -5'
32015 5' -53.9 NC_006949.1 + 4634 0.66 0.78859
Target:  5'- aCGCuGCCGgcgaaCGUCGUAAu-GAAUGGc -3'
miRNA:   3'- cGCGuCGGCg----GCAGCGUUuuCUUGCC- -5'
32015 5' -53.9 NC_006949.1 + 33651 0.66 0.778564
Target:  5'- aGCGC-GCUGCCGUU-CAGugGGGAAuCGGu -3'
miRNA:   3'- -CGCGuCGGCGGCAGcGUU--UUCUU-GCC- -5'
32015 5' -53.9 NC_006949.1 + 43522 0.66 0.764269
Target:  5'- cGgGCAGCCGUaccucucagagCGCAAGGaGACGGu -3'
miRNA:   3'- -CgCGUCGGCGgca--------GCGUUUUcUUGCC- -5'
32015 5' -53.9 NC_006949.1 + 8774 0.66 0.758058
Target:  5'- aUGCAGCCGCgGUuaaUGCugcAAAGGGCa- -3'
miRNA:   3'- cGCGUCGGCGgCA---GCGu--UUUCUUGcc -5'
32015 5' -53.9 NC_006949.1 + 30584 0.67 0.726339
Target:  5'- aGCGCGGaCCGCUcaCGguGAAauGCGGa -3'
miRNA:   3'- -CGCGUC-GGCGGcaGCguUUUcuUGCC- -5'
32015 5' -53.9 NC_006949.1 + 14417 0.67 0.704693
Target:  5'- cGCGUAGCCGCCGcuggCGCuguuGAu--- -3'
miRNA:   3'- -CGCGUCGGCGGCa---GCGuuuuCUugcc -5'
32015 5' -53.9 NC_006949.1 + 10351 0.68 0.671708
Target:  5'- aGCGUAGuCCGCCaUUGCucGGAGggUGa -3'
miRNA:   3'- -CGCGUC-GGCGGcAGCGu-UUUCuuGCc -5'
32015 5' -53.9 NC_006949.1 + 39128 0.68 0.660622
Target:  5'- uGCaGCAGCuCGCCaUCGCGuuuGuACGGa -3'
miRNA:   3'- -CG-CGUCG-GCGGcAGCGUuuuCuUGCC- -5'
32015 5' -53.9 NC_006949.1 + 7794 0.68 0.660622
Target:  5'- -aGCAG-CGCCGUUGC----GGGCGGg -3'
miRNA:   3'- cgCGUCgGCGGCAGCGuuuuCUUGCC- -5'
32015 5' -53.9 NC_006949.1 + 19724 0.68 0.660622
Target:  5'- gGCGCAGCCccugaGCCGgCGUaucuacguucaGAGGGAuuugGCGGu -3'
miRNA:   3'- -CGCGUCGG-----CGGCaGCG-----------UUUUCU----UGCC- -5'
32015 5' -53.9 NC_006949.1 + 33704 0.68 0.649509
Target:  5'- cCGCAuucaacGCCGCCGUUGUu-GGGAauaucGCGGu -3'
miRNA:   3'- cGCGU------CGGCGGCAGCGuuUUCU-----UGCC- -5'
32015 5' -53.9 NC_006949.1 + 14360 0.68 0.638379
Target:  5'- uGCGaCGGCgGCUGcgCGCAGAucGGCGGc -3'
miRNA:   3'- -CGC-GUCGgCGGCa-GCGUUUucUUGCC- -5'
32015 5' -53.9 NC_006949.1 + 16272 0.69 0.576226
Target:  5'- aGCGCAGCUGCUGUuggucagacugcuuaUGCAGAGucuAUGGu -3'
miRNA:   3'- -CGCGUCGGCGGCA---------------GCGUUUUcu-UGCC- -5'
32015 5' -53.9 NC_006949.1 + 18767 0.7 0.539106
Target:  5'- gGUGUggauaugacgGGCCGCCaGUUGCAGAuGAGCGc -3'
miRNA:   3'- -CGCG----------UCGGCGG-CAGCGUUUuCUUGCc -5'
32015 5' -53.9 NC_006949.1 + 14297 1.14 0.000576
Target:  5'- cGCGCAGCCGCCGUCGCAAAAGAACGGg -3'
miRNA:   3'- -CGCGUCGGCGGCAGCGUUUUCUUGCC- -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.