miRNA display CGI


Results 1 - 20 of 37 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
7015 3' -56.1 NC_001875.2 + 120764 1.07 0.003082
Target:  5'- gUCCAACCGCGAAGUGCUCGUCGCCAAa -3'
miRNA:   3'- -AGGUUGGCGCUUCACGAGCAGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 69425 0.75 0.370669
Target:  5'- uUCCA--CGCGAAGUGCUUGaCGCCGg -3'
miRNA:   3'- -AGGUugGCGCUUCACGAGCaGCGGUu -5'
7015 3' -56.1 NC_001875.2 + 71885 0.74 0.413462
Target:  5'- cCCAGCCGCGAAua-CUCGUCGaCCAGc -3'
miRNA:   3'- aGGUUGGCGCUUcacGAGCAGC-GGUU- -5'
7015 3' -56.1 NC_001875.2 + 110274 0.73 0.487844
Target:  5'- gCUGGCCGCGGAGcgcgcgggcUGCccCGUCGCCGAg -3'
miRNA:   3'- aGGUUGGCGCUUC---------ACGa-GCAGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 6490 0.73 0.497591
Target:  5'- cCCAA-CGCGGAGUGC-CG-CGCCAAc -3'
miRNA:   3'- aGGUUgGCGCUUCACGaGCaGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 94256 0.72 0.557706
Target:  5'- gCCGGCCGCGGc--GCUCG-CGCCGg -3'
miRNA:   3'- aGGUUGGCGCUucaCGAGCaGCGGUu -5'
7015 3' -56.1 NC_001875.2 + 11807 0.72 0.557706
Target:  5'- gCCGGCCGCGucGGUGUUUGUggucgCGCCGGu -3'
miRNA:   3'- aGGUUGGCGCu-UCACGAGCA-----GCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 67366 0.7 0.615545
Target:  5'- -aCAACCGCGAcucguccaccgGCUCGUCgGCCAAu -3'
miRNA:   3'- agGUUGGCGCUuca--------CGAGCAG-CGGUU- -5'
7015 3' -56.1 NC_001875.2 + 72124 0.7 0.619707
Target:  5'- cUCCAG-CGCGAGccgcUGCUCGcUCGCCAGc -3'
miRNA:   3'- -AGGUUgGCGCUUc---ACGAGC-AGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 63457 0.7 0.650941
Target:  5'- gCCAGCCGCGAGGcGUUgGUUuccaGCCAc -3'
miRNA:   3'- aGGUUGGCGCUUCaCGAgCAG----CGGUu -5'
7015 3' -56.1 NC_001875.2 + 16014 0.7 0.6717
Target:  5'- cUgGGCCGCGAGGUcaaCGUCGCCAc -3'
miRNA:   3'- aGgUUGGCGCUUCAcgaGCAGCGGUu -5'
7015 3' -56.1 NC_001875.2 + 101330 0.69 0.682034
Target:  5'- gUCguGCaCGUGgcGUGCuUUGUCGCCAAa -3'
miRNA:   3'- -AGguUG-GCGCuuCACG-AGCAGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 16388 0.69 0.691298
Target:  5'- gCUAGCucaaCGCGGuaggugcGGUGUUCGUCGCCGc -3'
miRNA:   3'- aGGUUG----GCGCU-------UCACGAGCAGCGGUu -5'
7015 3' -56.1 NC_001875.2 + 129981 0.69 0.702565
Target:  5'- -gCGGCgGCGGcaUGCUCGUgGCCAAa -3'
miRNA:   3'- agGUUGgCGCUucACGAGCAgCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 82983 0.69 0.702565
Target:  5'- uUCC--UCGCGgcGccGCUCGUCGCCGg -3'
miRNA:   3'- -AGGuuGGCGCuuCa-CGAGCAGCGGUu -5'
7015 3' -56.1 NC_001875.2 + 67707 0.69 0.702565
Target:  5'- gCCGGCgGCcuGAGGggGUUCGUUGCCGAg -3'
miRNA:   3'- aGGUUGgCG--CUUCa-CGAGCAGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 125464 0.68 0.732876
Target:  5'- cCgGGCCGCGcGGUGCccgacgacgacaUCGUgGCCGAg -3'
miRNA:   3'- aGgUUGGCGCuUCACG------------AGCAgCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 122251 0.68 0.732876
Target:  5'- -gCGGCCGCGAaugGGUGaUCGaCGCCGAu -3'
miRNA:   3'- agGUUGGCGCU---UCACgAGCaGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 45920 0.68 0.752647
Target:  5'- gCCGACUuuGCuc--UGCUCGUCGCCAGa -3'
miRNA:   3'- aGGUUGG--CGcuucACGAGCAGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 106009 0.68 0.762373
Target:  5'- cCCGACUucaucuggGCGuugcAGUGCUCGgcgggCGCCGAg -3'
miRNA:   3'- aGGUUGG--------CGCu---UCACGAGCa----GCGGUU- -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.