miRNA display CGI


Results 1 - 20 of 21 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
13285 3' -46.7 NC_003409.1 + 122993 0.66 0.999898
Target:  5'- --aUCAGCGCugcagGCUGUGCGCUg -3'
miRNA:   3'- caaAGUUGUGcauagUGAUACGCGGg -5'
13285 3' -46.7 NC_003409.1 + 41744 0.66 0.999898
Target:  5'- ---aCAugACGaGUCugUagauggccgGUGUGCCCg -3'
miRNA:   3'- caaaGUugUGCaUAGugA---------UACGCGGG- -5'
13285 3' -46.7 NC_003409.1 + 22341 0.66 0.999867
Target:  5'- ----aAGCGCGUAgCGCUucGCGCCg -3'
miRNA:   3'- caaagUUGUGCAUaGUGAuaCGCGGg -5'
13285 3' -46.7 NC_003409.1 + 34100 0.66 0.999867
Target:  5'- ----gAGCGCGccUCGCUG-GCGCCUc -3'
miRNA:   3'- caaagUUGUGCauAGUGAUaCGCGGG- -5'
13285 3' -46.7 NC_003409.1 + 81563 0.66 0.999827
Target:  5'- ---cCGACAUGaccggCGCUGUG-GCCCg -3'
miRNA:   3'- caaaGUUGUGCaua--GUGAUACgCGGG- -5'
13285 3' -46.7 NC_003409.1 + 102479 0.66 0.999827
Target:  5'- ---gCAGCGCGUGUaCGCcgcGCuGCCCu -3'
miRNA:   3'- caaaGUUGUGCAUA-GUGauaCG-CGGG- -5'
13285 3' -46.7 NC_003409.1 + 119968 0.66 0.999776
Target:  5'- ----gAGCACGcg-CGCg--GCGCCCa -3'
miRNA:   3'- caaagUUGUGCauaGUGauaCGCGGG- -5'
13285 3' -46.7 NC_003409.1 + 26930 0.67 0.999713
Target:  5'- ---aCGACagGCGUuUCugUGUGCGCUUc -3'
miRNA:   3'- caaaGUUG--UGCAuAGugAUACGCGGG- -5'
13285 3' -46.7 NC_003409.1 + 82664 0.67 0.999635
Target:  5'- ---gCAGCGCGa--CACUGUcCGCCCc -3'
miRNA:   3'- caaaGUUGUGCauaGUGAUAcGCGGG- -5'
13285 3' -46.7 NC_003409.1 + 68283 0.67 0.999422
Target:  5'- uUUUCAACcuuuaucUCACU-UGCGCCCg -3'
miRNA:   3'- cAAAGUUGugcau--AGUGAuACGCGGG- -5'
13285 3' -46.7 NC_003409.1 + 60730 0.68 0.999109
Target:  5'- --aUCA-CAUcauUCACUAUGCGaCCCa -3'
miRNA:   3'- caaAGUuGUGcauAGUGAUACGC-GGG- -5'
13285 3' -46.7 NC_003409.1 + 33817 0.68 0.998882
Target:  5'- ---cCAugGCGgg-CGCUGUcccuggcGCGCCCg -3'
miRNA:   3'- caaaGUugUGCauaGUGAUA-------CGCGGG- -5'
13285 3' -46.7 NC_003409.1 + 99653 0.68 0.998836
Target:  5'- ---gCAGCACGUGU-GCUGcgccacgccaauacUGCGCUCa -3'
miRNA:   3'- caaaGUUGUGCAUAgUGAU--------------ACGCGGG- -5'
13285 3' -46.7 NC_003409.1 + 45908 0.68 0.998661
Target:  5'- --cUCAcCAUGg--CGCUAaugGCGCCCg -3'
miRNA:   3'- caaAGUuGUGCauaGUGAUa--CGCGGG- -5'
13285 3' -46.7 NC_003409.1 + 21755 0.7 0.994523
Target:  5'- uUUUUGACaaaGCGUGUCGCcaggUGUGUGCCg -3'
miRNA:   3'- cAAAGUUG---UGCAUAGUG----AUACGCGGg -5'
13285 3' -46.7 NC_003409.1 + 30079 0.7 0.991435
Target:  5'- --cUguGCGCGU---GCUAUGUGCCCu -3'
miRNA:   3'- caaAguUGUGCAuagUGAUACGCGGG- -5'
13285 3' -46.7 NC_003409.1 + 113424 0.7 0.991435
Target:  5'- ---gCAACACGgcgAUCGCc-UGCGCCa -3'
miRNA:   3'- caaaGUUGUGCa--UAGUGauACGCGGg -5'
13285 3' -46.7 NC_003409.1 + 25895 0.71 0.985347
Target:  5'- ---aCAGCGCGUAcCGacCUAUGCGCgCCc -3'
miRNA:   3'- caaaGUUGUGCAUaGU--GAUACGCG-GG- -5'
13285 3' -46.7 NC_003409.1 + 115972 0.73 0.970667
Target:  5'- -aUUCAcaaGCACcUGUucugcgaccCGCUGUGCGCCCu -3'
miRNA:   3'- caAAGU---UGUGcAUA---------GUGAUACGCGGG- -5'
13285 3' -46.7 NC_003409.1 + 31930 0.73 0.956323
Target:  5'- --cUCGGCGCGUGUCcguacacggccACUGUgccgcgucgGCGCCCc -3'
miRNA:   3'- caaAGUUGUGCAUAG-----------UGAUA---------CGCGGG- -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.