miRNA display CGI


Results 1 - 20 of 28 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
16444 3' -53.7 NC_004084.1 + 38555 1.08 0.001513
Target:  5'- cUACAACCAACACCGGUCAGCAGCUGGu -3'
miRNA:   3'- -AUGUUGGUUGUGGCCAGUCGUCGACC- -5'
16444 3' -53.7 NC_004084.1 + 8131 0.75 0.295319
Target:  5'- gAUGACCGACGCCuGGUCGGCAGaCgucgaGGa -3'
miRNA:   3'- aUGUUGGUUGUGG-CCAGUCGUC-Ga----CC- -5'
16444 3' -53.7 NC_004084.1 + 47101 0.73 0.405301
Target:  5'- gACAACC--CGCCGGUCGGCAcCUGc -3'
miRNA:   3'- aUGUUGGuuGUGGCCAGUCGUcGACc -5'
16444 3' -53.7 NC_004084.1 + 6143 0.72 0.464051
Target:  5'- cGCGACCAGCGCCGGgguuccuggcgaUCGGgcucCAGgUGGa -3'
miRNA:   3'- aUGUUGGUUGUGGCC------------AGUC----GUCgACC- -5'
16444 3' -53.7 NC_004084.1 + 52833 0.71 0.484606
Target:  5'- gACAGCCAcCACCGuacagCGGCAGUUGa -3'
miRNA:   3'- aUGUUGGUuGUGGCca---GUCGUCGACc -5'
16444 3' -53.7 NC_004084.1 + 51772 0.7 0.53667
Target:  5'- cUACGGCCuGACACCGGUCaauaccgAGUGGC-GGu -3'
miRNA:   3'- -AUGUUGG-UUGUGGCCAG-------UCGUCGaCC- -5'
16444 3' -53.7 NC_004084.1 + 21586 0.7 0.570598
Target:  5'- ---cACCGAUgcaACCGGcgAGCAGCUGGa -3'
miRNA:   3'- auguUGGUUG---UGGCCagUCGUCGACC- -5'
16444 3' -53.7 NC_004084.1 + 7604 0.7 0.58166
Target:  5'- cACAGCCAGCAgCUGGacuacgaCGGCgaAGCUGGc -3'
miRNA:   3'- aUGUUGGUUGU-GGCCa------GUCG--UCGACC- -5'
16444 3' -53.7 NC_004084.1 + 54246 0.69 0.592765
Target:  5'- aGCGAUCAGCGCCG-UCGGCgaGGUUGa -3'
miRNA:   3'- aUGUUGGUUGUGGCcAGUCG--UCGACc -5'
16444 3' -53.7 NC_004084.1 + 11167 0.69 0.60056
Target:  5'- gGC-GCCGGCgaGCCGGUCguaucguucguuccAGCAGCUGc -3'
miRNA:   3'- aUGuUGGUUG--UGGCCAG--------------UCGUCGACc -5'
16444 3' -53.7 NC_004084.1 + 35886 0.69 0.603905
Target:  5'- --aGGCCAGUGCCGGUCGGaCGucccGCUGGa -3'
miRNA:   3'- augUUGGUUGUGGCCAGUC-GU----CGACC- -5'
16444 3' -53.7 NC_004084.1 + 3643 0.69 0.61507
Target:  5'- gGCGAUCAguaGCGCUGG-CGGgGGUUGGg -3'
miRNA:   3'- aUGUUGGU---UGUGGCCaGUCgUCGACC- -5'
16444 3' -53.7 NC_004084.1 + 54521 0.69 0.61507
Target:  5'- cUACAACCGGCACCuGGaCGGCGagaucguccggcGCUGu -3'
miRNA:   3'- -AUGUUGGUUGUGG-CCaGUCGU------------CGACc -5'
16444 3' -53.7 NC_004084.1 + 29438 0.69 0.61507
Target:  5'- --aGGCCGACGUCGGUCGcGC-GCUGGu -3'
miRNA:   3'- augUUGGUUGUGGCCAGU-CGuCGACC- -5'
16444 3' -53.7 NC_004084.1 + 34982 0.67 0.746126
Target:  5'- cGCuuCCAuCGCCGccugcguGUCAGCgaucAGCUGGg -3'
miRNA:   3'- aUGuuGGUuGUGGC-------CAGUCG----UCGACC- -5'
16444 3' -53.7 NC_004084.1 + 31129 0.67 0.747183
Target:  5'- aACAG-CGGCGCCGcgaucGUCAGCGGUUcGGa -3'
miRNA:   3'- aUGUUgGUUGUGGC-----CAGUCGUCGA-CC- -5'
16444 3' -53.7 NC_004084.1 + 58189 0.67 0.747183
Target:  5'- cUGCGugCAucgcuCGCCGGUCGaCuucGCUGGg -3'
miRNA:   3'- -AUGUugGUu----GUGGCCAGUcGu--CGACC- -5'
16444 3' -53.7 NC_004084.1 + 39854 0.67 0.757692
Target:  5'- gGCGGCCGcgGCGCC-GUCgAGCAcGCUGa -3'
miRNA:   3'- aUGUUGGU--UGUGGcCAG-UCGU-CGACc -5'
16444 3' -53.7 NC_004084.1 + 49533 0.67 0.757692
Target:  5'- -cCGAgUCGACGCU-GUCAGCGGUUGGu -3'
miRNA:   3'- auGUU-GGUUGUGGcCAGUCGUCGACC- -5'
16444 3' -53.7 NC_004084.1 + 9715 0.67 0.757692
Target:  5'- --uGGCCGACGCCGauGcCGGCGGCUucgaGGa -3'
miRNA:   3'- augUUGGUUGUGGC--CaGUCGUCGA----CC- -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.