miRNA display CGI


Results 1 - 20 of 23 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
7109 3' -54.2 NC_001895.1 + 1146 0.66 0.652532
Target:  5'- uGCCUccauuUUCGggcCGCUGGCggUCAUuguuuuuGCCGCa -3'
miRNA:   3'- -CGGA-----AAGC---GUGACCGuaGGUG-------UGGCG- -5'
7109 3' -54.2 NC_001895.1 + 28926 0.66 0.630697
Target:  5'- uGCCg---GUAUUGaGCGUUCGcCGCCGCa -3'
miRNA:   3'- -CGGaaagCGUGAC-CGUAGGU-GUGGCG- -5'
7109 3' -54.2 NC_001895.1 + 21584 0.66 0.607719
Target:  5'- cGCCUgcugcCGCGaugaUGGCAUUgAUGCCGg -3'
miRNA:   3'- -CGGAaa---GCGUg---ACCGUAGgUGUGGCg -5'
7109 3' -54.2 NC_001895.1 + 20366 0.66 0.607719
Target:  5'- uGCCUguugCGCACUGaCA--CGCACCaGCg -3'
miRNA:   3'- -CGGAaa--GCGUGACcGUagGUGUGG-CG- -5'
7109 3' -54.2 NC_001895.1 + 5948 0.66 0.607719
Target:  5'- aCCUgacacUGCACcGGCGUCC--ACCGCc -3'
miRNA:   3'- cGGAaa---GCGUGaCCGUAGGugUGGCG- -5'
7109 3' -54.2 NC_001895.1 + 8378 0.67 0.573449
Target:  5'- aGCUUgagaaCGCGCUGGCA--CGCugUGCc -3'
miRNA:   3'- -CGGAaa---GCGUGACCGUagGUGugGCG- -5'
7109 3' -54.2 NC_001895.1 + 12754 0.67 0.562118
Target:  5'- uGCCgg-UGCagcaaaGCUGGCAgcggcaaCCGCGCCGg -3'
miRNA:   3'- -CGGaaaGCG------UGACCGUa------GGUGUGGCg -5'
7109 3' -54.2 NC_001895.1 + 6447 0.67 0.562118
Target:  5'- cGCUgggcgguggCGCGCauccagGGCAagCCGCGCUGCa -3'
miRNA:   3'- -CGGaaa------GCGUGa-----CCGUa-GGUGUGGCG- -5'
7109 3' -54.2 NC_001895.1 + 14133 0.67 0.562118
Target:  5'- gGUCUUUUGUugUGGUAcUCugGCgGCu -3'
miRNA:   3'- -CGGAAAGCGugACCGUaGGugUGgCG- -5'
7109 3' -54.2 NC_001895.1 + 10349 0.67 0.555349
Target:  5'- ---aUUCGCACUGGCAUuaucgucgaaaccgaCCuuaACGCCGg -3'
miRNA:   3'- cggaAAGCGUGACCGUA---------------GG---UGUGGCg -5'
7109 3' -54.2 NC_001895.1 + 23658 0.67 0.539649
Target:  5'- uGCCacgaaaGCGCaGGcCAUgCGCGCCGCu -3'
miRNA:   3'- -CGGaaag--CGUGaCC-GUAgGUGUGGCG- -5'
7109 3' -54.2 NC_001895.1 + 19014 0.68 0.517493
Target:  5'- aCCgg-UGCGCUGccguuCAUCCccGCACCGCg -3'
miRNA:   3'- cGGaaaGCGUGACc----GUAGG--UGUGGCG- -5'
7109 3' -54.2 NC_001895.1 + 5700 0.68 0.517493
Target:  5'- cGCCgg-UGCGCUGGCG--CAC-CUGCa -3'
miRNA:   3'- -CGGaaaGCGUGACCGUagGUGuGGCG- -5'
7109 3' -54.2 NC_001895.1 + 18068 0.68 0.493553
Target:  5'- gGCUg-UUGCACUGGCAUCagucugucagaaGCugCGUg -3'
miRNA:   3'- -CGGaaAGCGUGACCGUAGg-----------UGugGCG- -5'
7109 3' -54.2 NC_001895.1 + 5747 0.68 0.484973
Target:  5'- cGCCag-CGCACcggcGGCAUCaC-CACCGUc -3'
miRNA:   3'- -CGGaaaGCGUGa---CCGUAG-GuGUGGCG- -5'
7109 3' -54.2 NC_001895.1 + 13411 0.69 0.463844
Target:  5'- gGCCuUUUCGCGCuguggUGGCGUCCuguGCgGUa -3'
miRNA:   3'- -CGG-AAAGCGUG-----ACCGUAGGug-UGgCG- -5'
7109 3' -54.2 NC_001895.1 + 2971 0.69 0.442187
Target:  5'- cGCUgc-UGUACUGGCAgggguuuUCCGUGCCGCa -3'
miRNA:   3'- -CGGaaaGCGUGACCGU-------AGGUGUGGCG- -5'
7109 3' -54.2 NC_001895.1 + 28160 0.69 0.440154
Target:  5'- gGUCUUUCGCGCccgacggccucgcgUGGCGcguUCCAUGCauaaGCa -3'
miRNA:   3'- -CGGAAAGCGUG--------------ACCGU---AGGUGUGg---CG- -5'
7109 3' -54.2 NC_001895.1 + 28764 0.71 0.34844
Target:  5'- uGCCaUUCGUgaUGuGCGUgCACGCCGCc -3'
miRNA:   3'- -CGGaAAGCGugAC-CGUAgGUGUGGCG- -5'
7109 3' -54.2 NC_001895.1 + 2594 0.73 0.25917
Target:  5'- aGUCUUUCgacuaucagcuGCACUGGUAUCgugccgggcuugaGCACCGCa -3'
miRNA:   3'- -CGGAAAG-----------CGUGACCGUAGg------------UGUGGCG- -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.