miRNA display CGI


Results 1 - 20 of 30 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
11969 3' -60.4 NC_003278.1 + 22562 0.66 0.350712
Target:  5'- gGCUGcucgcgaUCCCcCCGcgcGGCGCCgUGCuGCa -3'
miRNA:   3'- -CGAC-------AGGGcGGCa--CUGCGGgACGuCG- -5'
11969 3' -60.4 NC_003278.1 + 22829 0.66 0.343249
Target:  5'- cGCUGgcgggCCUGCCGa----UCCUGCAGCu -3'
miRNA:   3'- -CGACa----GGGCGGCacugcGGGACGUCG- -5'
11969 3' -60.4 NC_003278.1 + 19522 0.66 0.343249
Target:  5'- ----aCCUGCagcacaGccACGCCCUGCAGCa -3'
miRNA:   3'- cgacaGGGCGg-----CacUGCGGGACGUCG- -5'
11969 3' -60.4 NC_003278.1 + 1552 0.66 0.343249
Target:  5'- aGCUuggaacUCgCGCCaaugcaGACGCgCCUGCAGCa -3'
miRNA:   3'- -CGAc-----AGgGCGGca----CUGCG-GGACGUCG- -5'
11969 3' -60.4 NC_003278.1 + 31938 0.66 0.343249
Target:  5'- aGCUGaugaacacggcaUCCgGUCG--GCGCCCgccgGCGGCg -3'
miRNA:   3'- -CGAC------------AGGgCGGCacUGCGGGa---CGUCG- -5'
11969 3' -60.4 NC_003278.1 + 5889 0.66 0.327077
Target:  5'- cCUGgcaCCGCCGUGACccggGCCUgGUGGUg -3'
miRNA:   3'- cGACag-GGCGGCACUG----CGGGaCGUCG- -5'
11969 3' -60.4 NC_003278.1 + 19347 0.66 0.327077
Target:  5'- cGCgccUUCCGCacccagCGcGGCGCCCUGgAGCa -3'
miRNA:   3'- -CGac-AGGGCG------GCaCUGCGGGACgUCG- -5'
11969 3' -60.4 NC_003278.1 + 31035 0.66 0.327077
Target:  5'- cGCUGggCCGCaGcGACG-CUUGCAGCa -3'
miRNA:   3'- -CGACagGGCGgCaCUGCgGGACGUCG- -5'
11969 3' -60.4 NC_003278.1 + 28176 0.66 0.319206
Target:  5'- aGgUGUCgCCGCaCuUGccGCGCCC-GCAGCg -3'
miRNA:   3'- -CgACAG-GGCG-GcAC--UGCGGGaCGUCG- -5'
11969 3' -60.4 NC_003278.1 + 15346 0.66 0.319206
Target:  5'- gGCUGguuaCCGgUGgcgGugGCCUgacgGCAGCa -3'
miRNA:   3'- -CGACag--GGCgGCa--CugCGGGa---CGUCG- -5'
11969 3' -60.4 NC_003278.1 + 20655 0.67 0.303892
Target:  5'- gGUUGUCCaacuggGUCGcGGCGaCCCUcGCGGCc -3'
miRNA:   3'- -CGACAGGg-----CGGCaCUGC-GGGA-CGUCG- -5'
11969 3' -60.4 NC_003278.1 + 31148 0.67 0.303892
Target:  5'- ----aCCCGCC-UGGCGCCCagcgcccucUGguGCg -3'
miRNA:   3'- cgacaGGGCGGcACUGCGGG---------ACguCG- -5'
11969 3' -60.4 NC_003278.1 + 21318 0.67 0.289149
Target:  5'- cGCUGaagCgCGCCGgcaggucGAUGCCCagGUAGCc -3'
miRNA:   3'- -CGACa--GgGCGGCa------CUGCGGGa-CGUCG- -5'
11969 3' -60.4 NC_003278.1 + 5785 0.67 0.281991
Target:  5'- uGCUGgaaCCaGCCaaUGuucACGUCCUGCAGCa -3'
miRNA:   3'- -CGACag-GG-CGGc-AC---UGCGGGACGUCG- -5'
11969 3' -60.4 NC_003278.1 + 8741 0.68 0.268097
Target:  5'- cGCUGgCCCGaagaCCcUGGcCGCCCUcgGCGGCg -3'
miRNA:   3'- -CGACaGGGC----GGcACU-GCGGGA--CGUCG- -5'
11969 3' -60.4 NC_003278.1 + 15518 0.68 0.26136
Target:  5'- cGCUGguaugCaCUGCCGUGGCcaguCCCUGCgacaccaacGGCa -3'
miRNA:   3'- -CGACa----G-GGCGGCACUGc---GGGACG---------UCG- -5'
11969 3' -60.4 NC_003278.1 + 6267 0.69 0.218007
Target:  5'- --aGUCCCGCCaaGGCGCacuuCCUGC-GCg -3'
miRNA:   3'- cgaCAGGGCGGcaCUGCG----GGACGuCG- -5'
11969 3' -60.4 NC_003278.1 + 14288 0.69 0.218007
Target:  5'- aGCcGUCUCGCCG-GGCGCgCC-GcCGGCg -3'
miRNA:   3'- -CGaCAGGGCGGCaCUGCG-GGaC-GUCG- -5'
11969 3' -60.4 NC_003278.1 + 15073 0.69 0.201389
Target:  5'- cGCguagGUCCCgGCgGUGACGCCggaguugGcCAGCg -3'
miRNA:   3'- -CGa---CAGGG-CGgCACUGCGGga-----C-GUCG- -5'
11969 3' -60.4 NC_003278.1 + 30869 0.7 0.196099
Target:  5'- cGCUGUCgCGCUG-GGCGaUCgGCAGCa -3'
miRNA:   3'- -CGACAGgGCGGCaCUGCgGGaCGUCG- -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.