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 + 711 0.7 0.876673
Target:  5'- gGCGCCaAGGCGGCgccagcacgcGCCGUgcacGUC-GCUGCc -3'
miRNA:   3'- -CGUGG-UCCGCUG----------UGGCA----UAGuCGAUG- -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 + 1309 0.68 0.953998
Target:  5'- aCGCgCGGGUGACGCCGcg-CAGCc-- -3'
miRNA:   3'- cGUG-GUCCGCUGUGGCauaGUCGaug -5'
1620 3' -53.9 NC_001347.2 + 1916 0.68 0.945734
Target:  5'- gGCGCUGGGCGcggugcugcccGCGCgGUGgcUgGGCUGCg -3'
miRNA:   3'- -CGUGGUCCGC-----------UGUGgCAU--AgUCGAUG- -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 + 15579 0.69 0.93655
Target:  5'- uCAUCAGGaCGAUACgGgcccgCGGCUGCa -3'
miRNA:   3'- cGUGGUCC-GCUGUGgCaua--GUCGAUG- -5'
1620 3' -53.9 NC_001347.2 + 18419 0.67 0.967876
Target:  5'- cGCACCgAGGUGGaGCCGUugcUCAuGCUGg -3'
miRNA:   3'- -CGUGG-UCCGCUgUGGCAu--AGU-CGAUg -5'
1620 3' -53.9 NC_001347.2 + 22132 0.68 0.94998
Target:  5'- gGCAgCAugGGCGACACCGccUCGGUUu- -3'
miRNA:   3'- -CGUgGU--CCGCUGUGGCauAGUCGAug -5'
1620 3' -53.9 NC_001347.2 + 25355 0.66 0.984373
Target:  5'- cCGCguGGCGcugcacaccuaugGCGCCGUGgguuggCAGCUGg -3'
miRNA:   3'- cGUGguCCGC-------------UGUGGCAUa-----GUCGAUg -5'
1620 3' -53.9 NC_001347.2 + 29917 0.66 0.979384
Target:  5'- gGCACCGgcagcccauccucguGGaGGCACCGcgaCAGCUACc -3'
miRNA:   3'- -CGUGGU---------------CCgCUGUGGCauaGUCGAUG- -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 + 32218 0.67 0.964727
Target:  5'- cCGCCAGGaaCGAUaACCGUGUCcGCUcaACu -3'
miRNA:   3'- cGUGGUCC--GCUG-UGGCAUAGuCGA--UG- -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 + 38307 0.85 0.216165
Target:  5'- cGCGCCcccgccGGCGGCGCCGUA-CGGCUGCg -3'
miRNA:   3'- -CGUGGu-----CCGCUGUGGCAUaGUCGAUG- -5'
1620 3' -53.9 NC_001347.2 + 40509 0.67 0.961368
Target:  5'- gGCACCGGGCuucggGACGgUGUuUCGGCg-- -3'
miRNA:   3'- -CGUGGUCCG-----CUGUgGCAuAGUCGaug -5'
1620 3' -53.9 NC_001347.2 + 65219 0.66 0.982696
Target:  5'- cGUGCguGGaCGAC-CUGUGccgCGGCUACg -3'
miRNA:   3'- -CGUGguCC-GCUGuGGCAUa--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 + 79653 0.67 0.961368
Target:  5'- aGCGCCAGGCGGCugauCUG---CAGCg-- -3'
miRNA:   3'- -CGUGGUCCGCUGu---GGCauaGUCGaug -5'
1620 3' -53.9 NC_001347.2 + 82653 0.67 0.964727
Target:  5'- gGCACCgAGGCcucuaGAagGCCGUAcCAGCUGa -3'
miRNA:   3'- -CGUGG-UCCG-----CUg-UGGCAUaGUCGAUg -5'
1620 3' -53.9 NC_001347.2 + 85625 0.72 0.813361
Target:  5'- gGCACCGGGUGugACUGcaaCAGCgagGCc -3'
miRNA:   3'- -CGUGGUCCGCugUGGCauaGUCGa--UG- -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.