miRNA display CGI


Results 1 - 20 of 22 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
17348 5' -63.2 NC_004367.1 + 69560 0.66 0.568844
Target:  5'- gGCACUugGCCGGCUgaCCCCUuacuCCaCCCCGu -3'
miRNA:   3'- -UGUGG--CGGUUGA--GGGGGu---GG-GGGGUu -5'
17348 5' -63.2 NC_004367.1 + 117860 0.66 0.530204
Target:  5'- uUACaUGCCAuuuucaGC-CCCCC-CCCCCCAu -3'
miRNA:   3'- uGUG-GCGGU------UGaGGGGGuGGGGGGUu -5'
17348 5' -63.2 NC_004367.1 + 129761 0.67 0.492564
Target:  5'- -aGCCaCCGugUCCCCagaaCCCCCAAg -3'
miRNA:   3'- ugUGGcGGUugAGGGGgug-GGGGGUU- -5'
17348 5' -63.2 NC_004367.1 + 126852 0.67 0.492564
Target:  5'- -aGCCaCCGugUCCCCagaaCCCCCAAg -3'
miRNA:   3'- ugUGGcGGUugAGGGGgug-GGGGGUU- -5'
17348 5' -63.2 NC_004367.1 + 123943 0.67 0.492564
Target:  5'- -aGCCaCCGugUCCCCagaaCCCCCAAg -3'
miRNA:   3'- ugUGGcGGUugAGGGGgug-GGGGGUU- -5'
17348 5' -63.2 NC_004367.1 + 121034 0.67 0.492564
Target:  5'- -aGCCaCCGugUCCCCagaaCCCCCAAg -3'
miRNA:   3'- ugUGGcGGUugAGGGGgug-GGGGGUU- -5'
17348 5' -63.2 NC_004367.1 + 22586 0.68 0.429899
Target:  5'- uCGCC-CCA--UCCCCCACUCUCCAu -3'
miRNA:   3'- uGUGGcGGUugAGGGGGUGGGGGGUu -5'
17348 5' -63.2 NC_004367.1 + 56157 0.68 0.429899
Target:  5'- uCGCC-CCA--UCCCCCACUCUCCAu -3'
miRNA:   3'- uGUGGcGGUugAGGGGGUGGGGGGUu -5'
17348 5' -63.2 NC_004367.1 + 148724 0.68 0.424746
Target:  5'- cGCGCCgGCCAgaaaaaagugaggggGCguggCCUCCACCCgCCGAg -3'
miRNA:   3'- -UGUGG-CGGU---------------UGa---GGGGGUGGGgGGUU- -5'
17348 5' -63.2 NC_004367.1 + 115851 0.69 0.396259
Target:  5'- uCACC-CCA--UCCCCCACUCUCCAu -3'
miRNA:   3'- uGUGGcGGUugAGGGGGUGGGGGGUu -5'
17348 5' -63.2 NC_004367.1 + 56365 0.69 0.396259
Target:  5'- uCACC-CCA--UCCCCCACUCUCCAu -3'
miRNA:   3'- uGUGGcGGUugAGGGGGUGGGGGGUu -5'
17348 5' -63.2 NC_004367.1 + 22795 0.69 0.396259
Target:  5'- uCACC-CCA--UCCCCCACUCUCCAu -3'
miRNA:   3'- uGUGGcGGUugAGGGGGUGGGGGGUu -5'
17348 5' -63.2 NC_004367.1 + 61419 0.69 0.396259
Target:  5'- -aGCCGaCCAuCUCCCCCACUCCa--- -3'
miRNA:   3'- ugUGGC-GGUuGAGGGGGUGGGGgguu -5'
17348 5' -63.2 NC_004367.1 + 69778 0.69 0.388119
Target:  5'- cUACCGCCucuACcaCCCCUACCgCCCCu- -3'
miRNA:   3'- uGUGGCGGu--UGa-GGGGGUGG-GGGGuu -5'
17348 5' -63.2 NC_004367.1 + 69814 0.69 0.364364
Target:  5'- cUACCGCCucuGCcaCCCCUACCgCCCCu- -3'
miRNA:   3'- uGUGGCGGu--UGa-GGGGGUGG-GGGGuu -5'
17348 5' -63.2 NC_004367.1 + 41846 0.69 0.356673
Target:  5'- aGCACCGUUAAC-CCCUgGgCCUCCCAAc -3'
miRNA:   3'- -UGUGGCGGUUGaGGGGgU-GGGGGGUU- -5'
17348 5' -63.2 NC_004367.1 + 121418 0.7 0.327061
Target:  5'- cGCGCCuGCCAGCccacagaCCCCCAuucggaccUCCCCCAu -3'
miRNA:   3'- -UGUGG-CGGUUGa------GGGGGU--------GGGGGGUu -5'
17348 5' -63.2 NC_004367.1 + 124327 0.7 0.327061
Target:  5'- cGCGCCuGCCAGCccacagaCCCCCAuucggaccUCCCCCAu -3'
miRNA:   3'- -UGUGG-CGGUUGa------GGGGGU--------GGGGGGUu -5'
17348 5' -63.2 NC_004367.1 + 127236 0.7 0.327061
Target:  5'- cGCGCCuGCCAGCccacagaCCCCCAuucggaccUCCCCCAu -3'
miRNA:   3'- -UGUGG-CGGUUGa------GGGGGU--------GGGGGGUu -5'
17348 5' -63.2 NC_004367.1 + 130145 0.7 0.327061
Target:  5'- cGCGCCuGCCAGCccacagaCCCCCAuucggaccUCCCCCAu -3'
miRNA:   3'- -UGUGG-CGGUUGa------GGGGGU--------GGGGGGUu -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.