miRNA display CGI


Results 1 - 20 of 60 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
1620 3' -53.9 NC_001347.2 + 142769 1.11 0.004976
Target:  5'- aGCACCAGGCGACACCGUAUCAGCUACc -3'
miRNA:   3'- -CGUGGUCCGCUGUGGCAUAGUCGAUG- -5'
1620 3' -53.9 NC_001347.2 + 38307 0.85 0.216165
Target:  5'- cGCGCCcccgccGGCGGCGCCGUA-CGGCUGCg -3'
miRNA:   3'- -CGUGGu-----CCGCUGUGGCAUaGUCGAUG- -5'
1620 3' -53.9 NC_001347.2 + 185141 0.74 0.720297
Target:  5'- cCGCCGGGCGGCACgGgcaagugcuUCAGCaGCa -3'
miRNA:   3'- cGUGGUCCGCUGUGgCau-------AGUCGaUG- -5'
1620 3' -53.9 NC_001347.2 + 30590 0.73 0.75322
Target:  5'- cGCGCCGGGCGGCuuccugcggccggccGCgGUGccggCGGCUAUg -3'
miRNA:   3'- -CGUGGUCCGCUG---------------UGgCAUa---GUCGAUG- -5'
1620 3' -53.9 NC_001347.2 + 8342 0.72 0.821918
Target:  5'- aGCGCCgAGGguaggugcguuuCGGCGCCGUG-CAGUUGCc -3'
miRNA:   3'- -CGUGG-UCC------------GCUGUGGCAUaGUCGAUG- -5'
1620 3' -53.9 NC_001347.2 + 85625 0.72 0.813361
Target:  5'- gGCACCGGGUGugACUGcaaCAGCgagGCc -3'
miRNA:   3'- -CGUGGUCCGCugUGGCauaGUCGa--UG- -5'
1620 3' -53.9 NC_001347.2 + 1184 0.71 0.869449
Target:  5'- aUACCAGGCcaugGGCGCCGUGUgGcGCgcgGCg -3'
miRNA:   3'- cGUGGUCCG----CUGUGGCAUAgU-CGa--UG- -5'
1620 3' -53.9 NC_001347.2 + 168225 0.71 0.846543
Target:  5'- cGCGCCuccGUGGCAgCCGUuucCAGCUGCg -3'
miRNA:   3'- -CGUGGuc-CGCUGU-GGCAua-GUCGAUG- -5'
1620 3' -53.9 NC_001347.2 + 77429 0.71 0.853603
Target:  5'- uGCACCAGGUgcugcgcGAC-CCGUG-CGuGCUGCg -3'
miRNA:   3'- -CGUGGUCCG-------CUGuGGCAUaGU-CGAUG- -5'
1620 3' -53.9 NC_001347.2 + 108415 0.71 0.846543
Target:  5'- cCACCGcGGCGACA----AUCAGCUGCa -3'
miRNA:   3'- cGUGGU-CCGCUGUggcaUAGUCGAUG- -5'
1620 3' -53.9 NC_001347.2 + 96385 0.71 0.862015
Target:  5'- -aACCAGGCGGCGgCCGUgcgcAUCGcCUGCc -3'
miRNA:   3'- cgUGGUCCGCUGU-GGCA----UAGUcGAUG- -5'
1620 3' -53.9 NC_001347.2 + 140706 0.7 0.903382
Target:  5'- gGCGCUA-GCGugGCCGUAccuaUCGGCUc- -3'
miRNA:   3'- -CGUGGUcCGCugUGGCAU----AGUCGAug -5'
1620 3' -53.9 NC_001347.2 + 37614 0.7 0.890474
Target:  5'- gGCGCCAGGacuCGuCAUCGUAUCGGagcGCg -3'
miRNA:   3'- -CGUGGUCC---GCuGUGGCAUAGUCga-UG- -5'
1620 3' -53.9 NC_001347.2 + 711 0.7 0.876673
Target:  5'- gGCGCCaAGGCGGCgccagcacgcGCCGUgcacGUC-GCUGCc -3'
miRNA:   3'- -CGUGG-UCCGCUG----------UGGCA----UAGuCGAUG- -5'
1620 3' -53.9 NC_001347.2 + 162023 0.7 0.903382
Target:  5'- ---aCAGGUucuGCGCCGUGcUCAGCUGCu -3'
miRNA:   3'- cgugGUCCGc--UGUGGCAU-AGUCGAUG- -5'
1620 3' -53.9 NC_001347.2 + 96811 0.69 0.921019
Target:  5'- cCACCAGGUgccggcgacuGACGCCGgcAUCGGCa-- -3'
miRNA:   3'- cGUGGUCCG----------CUGUGGCa-UAGUCGaug -5'
1620 3' -53.9 NC_001347.2 + 95885 0.69 0.923212
Target:  5'- uGCACagcuucacggagaaGGGCGACGCCacggcGUGUCcuuGCUACc -3'
miRNA:   3'- -CGUGg-------------UCCGCUGUGG-----CAUAGu--CGAUG- -5'
1620 3' -53.9 NC_001347.2 + 90971 0.69 0.909494
Target:  5'- uCACCAauguGGCGACGCUGUGccgCAagcGCUACc -3'
miRNA:   3'- cGUGGU----CCGCUGUGGCAUa--GU---CGAUG- -5'
1620 3' -53.9 NC_001347.2 + 165866 0.69 0.93655
Target:  5'- gGCGgCAGG-GACACCGaUGUCgAGCcgGCg -3'
miRNA:   3'- -CGUgGUCCgCUGUGGC-AUAG-UCGa-UG- -5'
1620 3' -53.9 NC_001347.2 + 95475 0.69 0.909494
Target:  5'- cGCGUCAcGCGGCGCCGgUGUCGGCg-- -3'
miRNA:   3'- -CGUGGUcCGCUGUGGC-AUAGUCGaug -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.