miRNA display CGI


Results 1 - 20 of 25 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
1524 3' -55.7 NC_001335.1 + 22520 0.66 0.696457
Target:  5'- cGCCcgguGAGGGCUccccagaACUUguuccaggugUCCUGGAUGCCGg -3'
miRNA:   3'- -CGG----UUCUCGA-------UGGG----------AGGGCUUACGGC- -5'
1524 3' -55.7 NC_001335.1 + 37929 0.66 0.68667
Target:  5'- gGCgAAGAcGCUGCCgaacgCCCGAaucaucccgAUGCCa -3'
miRNA:   3'- -CGgUUCU-CGAUGGga---GGGCU---------UACGGc -5'
1524 3' -55.7 NC_001335.1 + 16683 0.66 0.68667
Target:  5'- aGCCAGGAGCgUGCCgaa-CGAGUucgcGCCGg -3'
miRNA:   3'- -CGGUUCUCG-AUGGgaggGCUUA----CGGC- -5'
1524 3' -55.7 NC_001335.1 + 5682 0.66 0.675747
Target:  5'- aCCAAGGGCgucgagcaggUGCUCgcggCCaggcaGAGUGCCGa -3'
miRNA:   3'- cGGUUCUCG----------AUGGGa---GGg----CUUACGGC- -5'
1524 3' -55.7 NC_001335.1 + 2548 0.66 0.675747
Target:  5'- cGCCGAGGGCguag--CCCGAcgGCgGg -3'
miRNA:   3'- -CGGUUCUCGaugggaGGGCUuaCGgC- -5'
1524 3' -55.7 NC_001335.1 + 27363 0.66 0.675747
Target:  5'- cGCCGAG-GCcaaCCUCCCGAG-GCg- -3'
miRNA:   3'- -CGGUUCuCGaugGGAGGGCUUaCGgc -5'
1524 3' -55.7 NC_001335.1 + 239 0.66 0.664782
Target:  5'- gGCUAAGAGC--CCCUCUCuauaGAGcGCCGc -3'
miRNA:   3'- -CGGUUCUCGauGGGAGGG----CUUaCGGC- -5'
1524 3' -55.7 NC_001335.1 + 47015 0.66 0.642771
Target:  5'- cGCCAAGcuGCUGCgCCaggCCGAAgacgugGCCGg -3'
miRNA:   3'- -CGGUUCu-CGAUG-GGag-GGCUUa-----CGGC- -5'
1524 3' -55.7 NC_001335.1 + 21347 0.66 0.642771
Target:  5'- aCCAGGAgaucaaguuucaGCaGCCCUUCCGGG-GCCa -3'
miRNA:   3'- cGGUUCU------------CGaUGGGAGGGCUUaCGGc -5'
1524 3' -55.7 NC_001335.1 + 19267 0.66 0.642771
Target:  5'- -aCAGGuAGUUACCCUCCggcucaCGAG-GCCGu -3'
miRNA:   3'- cgGUUC-UCGAUGGGAGG------GCUUaCGGC- -5'
1524 3' -55.7 NC_001335.1 + 16366 0.67 0.631746
Target:  5'- cGUCGAGgcGGCUGCCUugaUgCCGuccAUGCCGa -3'
miRNA:   3'- -CGGUUC--UCGAUGGG---AgGGCu--UACGGC- -5'
1524 3' -55.7 NC_001335.1 + 6528 0.67 0.620722
Target:  5'- cGCCAAGucg-ACCCaaggCCCGAGcugGCCGc -3'
miRNA:   3'- -CGGUUCucgaUGGGa---GGGCUUa--CGGC- -5'
1524 3' -55.7 NC_001335.1 + 4267 0.67 0.617416
Target:  5'- uGCCAuuGAGCUACacgucaggggacggCCCGAagGCCGu -3'
miRNA:   3'- -CGGUu-CUCGAUGgga-----------GGGCUuaCGGC- -5'
1524 3' -55.7 NC_001335.1 + 18142 0.67 0.598711
Target:  5'- aGCCcGGAgGCUGCCUUCaccaaCGggUcuucGCCGg -3'
miRNA:   3'- -CGGuUCU-CGAUGGGAGg----GCuuA----CGGC- -5'
1524 3' -55.7 NC_001335.1 + 8820 0.67 0.587745
Target:  5'- uCCGcgucGAGCcGCCCaCCCGAAUGCaCGc -3'
miRNA:   3'- cGGUu---CUCGaUGGGaGGGCUUACG-GC- -5'
1524 3' -55.7 NC_001335.1 + 28659 0.67 0.587745
Target:  5'- cGCCGAGuGCgccACCUUCCCGcagGCg- -3'
miRNA:   3'- -CGGUUCuCGa--UGGGAGGGCuuaCGgc -5'
1524 3' -55.7 NC_001335.1 + 12408 0.68 0.565932
Target:  5'- cCCGaaGGAGCc-CCCUCCCGGuggAUGUCa -3'
miRNA:   3'- cGGU--UCUCGauGGGAGGGCU---UACGGc -5'
1524 3' -55.7 NC_001335.1 + 2622 0.68 0.565932
Target:  5'- cGCCGucGGGCUACgCC-CUCGGcgGCUGa -3'
miRNA:   3'- -CGGUu-CUCGAUG-GGaGGGCUuaCGGC- -5'
1524 3' -55.7 NC_001335.1 + 20540 0.68 0.544334
Target:  5'- gGCCGAGA--UGCCCUCgUuGAUGCCa -3'
miRNA:   3'- -CGGUUCUcgAUGGGAGgGcUUACGGc -5'
1524 3' -55.7 NC_001335.1 + 16983 0.68 0.544334
Target:  5'- cGCCGugacgaugGGAGCgagcugugUGCCCagcgUCCCGAGgacguUGCCGa -3'
miRNA:   3'- -CGGU--------UCUCG--------AUGGG----AGGGCUU-----ACGGC- -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.