miRNA display CGI


Results 1 - 20 of 81 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
6874 3' -52.9 NC_001875.2 + 90823 0.65 0.976371
Target:  5'- cGGCCAcgcgGUUGGCGaccugcuuuaGGUGCGCGa -3'
miRNA:   3'- -CCGGUa---CAACUGCagca------CUACGCGCg -5'
6874 3' -52.9 NC_001875.2 + 125342 0.65 0.976371
Target:  5'- cGGCCAgcgUGUUGGCG-CGgcacuccgcguUGgGCGCc -3'
miRNA:   3'- -CCGGU---ACAACUGCaGCacu--------ACgCGCG- -5'
6874 3' -52.9 NC_001875.2 + 80267 0.66 0.974827
Target:  5'- uGGCCAcgccgcGCGUCGUGAacgGCuCGCa -3'
miRNA:   3'- -CCGGUacaac-UGCAGCACUa--CGcGCG- -5'
6874 3' -52.9 NC_001875.2 + 19807 0.66 0.974827
Target:  5'- cGCCcuUGUUGAaa--GUGAUGCGCa- -3'
miRNA:   3'- cCGGu-ACAACUgcagCACUACGCGcg -5'
6874 3' -52.9 NC_001875.2 + 5582 0.66 0.974827
Target:  5'- cGGUuuugCGUGUc-GCGUCGcaacaGAUGCGUGCa -3'
miRNA:   3'- -CCG----GUACAacUGCAGCa----CUACGCGCG- -5'
6874 3' -52.9 NC_001875.2 + 41829 0.66 0.972092
Target:  5'- cGGCCA-GUUGcGCGUCcaGuUGCcGCGCc -3'
miRNA:   3'- -CCGGUaCAAC-UGCAGcaCuACG-CGCG- -5'
6874 3' -52.9 NC_001875.2 + 6365 0.66 0.972092
Target:  5'- cGGCCAcGaUGuCGUCGUcGGgcacCGCGCg -3'
miRNA:   3'- -CCGGUaCaACuGCAGCA-CUac--GCGCG- -5'
6874 3' -52.9 NC_001875.2 + 86229 0.66 0.972092
Target:  5'- cGGCUgGUGUUGGa---GUGcUGCGCGCc -3'
miRNA:   3'- -CCGG-UACAACUgcagCACuACGCGCG- -5'
6874 3' -52.9 NC_001875.2 + 41109 0.66 0.97152
Target:  5'- cGGCauucaacGGCGUCGUGugccaGCGCGUg -3'
miRNA:   3'- -CCGguacaa-CUGCAGCACua---CGCGCG- -5'
6874 3' -52.9 NC_001875.2 + 37071 0.66 0.967912
Target:  5'- cGGCCAcgcUGUguuUGGCGgacgacaccgccgCGUGGgugUGCGgGCg -3'
miRNA:   3'- -CCGGU---ACA---ACUGCa------------GCACU---ACGCgCG- -5'
6874 3' -52.9 NC_001875.2 + 17287 0.66 0.965992
Target:  5'- cGCCGcacUGga-GCGUCGUGA-GCGcCGCc -3'
miRNA:   3'- cCGGU---ACaacUGCAGCACUaCGC-GCG- -5'
6874 3' -52.9 NC_001875.2 + 64566 0.66 0.965664
Target:  5'- uGGCCGgc--GAC-UCGUGGUucaucaaGCGCGCc -3'
miRNA:   3'- -CCGGUacaaCUGcAGCACUA-------CGCGCG- -5'
6874 3' -52.9 NC_001875.2 + 45036 0.66 0.963992
Target:  5'- uGGCCAaGUUGucaauggaguagcaaAUGUCGUGGUGCa--- -3'
miRNA:   3'- -CCGGUaCAAC---------------UGCAGCACUACGcgcg -5'
6874 3' -52.9 NC_001875.2 + 33459 0.66 0.962613
Target:  5'- cGCCAccu---CGUCGUGGUcgggGCGCGCc -3'
miRNA:   3'- cCGGUacaacuGCAGCACUA----CGCGCG- -5'
6874 3' -52.9 NC_001875.2 + 81572 0.66 0.962613
Target:  5'- cGCgGUGUUGcuguuuauguACGUCGcGGUG-GCGCu -3'
miRNA:   3'- cCGgUACAAC----------UGCAGCaCUACgCGCG- -5'
6874 3' -52.9 NC_001875.2 + 49881 0.66 0.962613
Target:  5'- cGCCAaccaaGugGUCGUcGAgcUGCGCGUg -3'
miRNA:   3'- cCGGUacaa-CugCAGCA-CU--ACGCGCG- -5'
6874 3' -52.9 NC_001875.2 + 120758 0.66 0.961556
Target:  5'- gGGCCGUGUccagGGCGcgCGccacgccaaacugcUGcaguuUGCGCGCg -3'
miRNA:   3'- -CCGGUACAa---CUGCa-GC--------------ACu----ACGCGCG- -5'
6874 3' -52.9 NC_001875.2 + 109999 0.67 0.959008
Target:  5'- cGGUCGg--UGGCGU--UGAcGCGCGCg -3'
miRNA:   3'- -CCGGUacaACUGCAgcACUaCGCGCG- -5'
6874 3' -52.9 NC_001875.2 + 79706 0.67 0.959008
Target:  5'- cGGCaCAguUUGGCGaUGUGGUacGUGCGCa -3'
miRNA:   3'- -CCG-GUacAACUGCaGCACUA--CGCGCG- -5'
6874 3' -52.9 NC_001875.2 + 41108 0.67 0.959008
Target:  5'- uGGCCAcaccGUcGcACGUCGUGu--CGCGCu -3'
miRNA:   3'- -CCGGUa---CAaC-UGCAGCACuacGCGCG- -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.