miRNA display CGI


Results 1 - 19 of 19 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
19566 3' -57.1 NC_004686.1 + 15252 0.66 0.652628
Target:  5'- cGGU--CAUCGAGGAAGUagugCCCuaacCCGUu -3'
miRNA:   3'- aCCGgaGUAGCUCCUUCA----GGGu---GGCG- -5'
19566 3' -57.1 NC_004686.1 + 24252 0.66 0.652628
Target:  5'- gGGCCUCcuGUUGGGGguGggCCGCCugGCg -3'
miRNA:   3'- aCCGGAG--UAGCUCCuuCagGGUGG--CG- -5'
19566 3' -57.1 NC_004686.1 + 6727 0.66 0.641798
Target:  5'- gUGGCCcCGUCGA-GAAuUCCgGCgGCa -3'
miRNA:   3'- -ACCGGaGUAGCUcCUUcAGGgUGgCG- -5'
19566 3' -57.1 NC_004686.1 + 9343 0.66 0.630961
Target:  5'- cGGCaUUCAaUGAGGcggagucggcGUCCCGCCGUu -3'
miRNA:   3'- aCCG-GAGUaGCUCCuu--------CAGGGUGGCG- -5'
19566 3' -57.1 NC_004686.1 + 39592 0.66 0.620124
Target:  5'- gUGGCgUUGUCGuGGAacGGUUggaCCACCGg -3'
miRNA:   3'- -ACCGgAGUAGCuCCU--UCAG---GGUGGCg -5'
19566 3' -57.1 NC_004686.1 + 52106 0.66 0.609298
Target:  5'- cGaCCgaugCGUCGAGGuuggggcguGGuUCCCACUGCg -3'
miRNA:   3'- aCcGGa---GUAGCUCCu--------UC-AGGGUGGCG- -5'
19566 3' -57.1 NC_004686.1 + 22584 0.66 0.608216
Target:  5'- cGGCCagcccUUGUCG-GGAccGGUggucaccCCCACCGCc -3'
miRNA:   3'- aCCGG-----AGUAGCuCCU--UCA-------GGGUGGCG- -5'
19566 3' -57.1 NC_004686.1 + 55607 0.66 0.59849
Target:  5'- cGGCaccCUCGggugCGAGGGcaa-CCACCGCa -3'
miRNA:   3'- aCCG---GAGUa---GCUCCUucagGGUGGCG- -5'
19566 3' -57.1 NC_004686.1 + 50607 0.67 0.587711
Target:  5'- gGGCCaaa--GAGGAAG--CCGCCGCg -3'
miRNA:   3'- aCCGGaguagCUCCUUCagGGUGGCG- -5'
19566 3' -57.1 NC_004686.1 + 53152 0.67 0.576968
Target:  5'- gUGGCCgguacagGUCGAGGuguUCCCACgGUu -3'
miRNA:   3'- -ACCGGag-----UAGCUCCuucAGGGUGgCG- -5'
19566 3' -57.1 NC_004686.1 + 26037 0.67 0.576968
Target:  5'- aUGGCgUCAcCGAGcGccaaacaguGGUCCCAgCGCu -3'
miRNA:   3'- -ACCGgAGUaGCUC-Cu--------UCAGGGUgGCG- -5'
19566 3' -57.1 NC_004686.1 + 51613 0.67 0.545033
Target:  5'- gUGGCggCGUUGAGcgcGUCCCacGCCGCg -3'
miRNA:   3'- -ACCGgaGUAGCUCcuuCAGGG--UGGCG- -5'
19566 3' -57.1 NC_004686.1 + 20700 0.67 0.545033
Target:  5'- gGGCagaaCAUCGAGucacGAAGUUCCGCCa- -3'
miRNA:   3'- aCCGga--GUAGCUC----CUUCAGGGUGGcg -5'
19566 3' -57.1 NC_004686.1 + 42064 0.68 0.493208
Target:  5'- aUGGaCCUCcauuAUgGAGcAAGUCCgCGCCGCc -3'
miRNA:   3'- -ACC-GGAG----UAgCUCcUUCAGG-GUGGCG- -5'
19566 3' -57.1 NC_004686.1 + 46834 0.68 0.483109
Target:  5'- gGGag-CAggggaCGAGGAAGUCCCGcuuCCGCc -3'
miRNA:   3'- aCCggaGUa----GCUCCUUCAGGGU---GGCG- -5'
19566 3' -57.1 NC_004686.1 + 49697 0.69 0.424775
Target:  5'- gUGGCCgaggaaAUCGAcaaagcccucGGAGGaCUCACCGCu -3'
miRNA:   3'- -ACCGGag----UAGCU----------CCUUCaGGGUGGCG- -5'
19566 3' -57.1 NC_004686.1 + 7013 0.7 0.37951
Target:  5'- gUGGCgU--UCGAGGAAG--CCGCCGCg -3'
miRNA:   3'- -ACCGgAguAGCUCCUUCagGGUGGCG- -5'
19566 3' -57.1 NC_004686.1 + 37440 0.74 0.215219
Target:  5'- -uGCCUCAUCGcGGcGAGUUCCuCCGCa -3'
miRNA:   3'- acCGGAGUAGCuCC-UUCAGGGuGGCG- -5'
19566 3' -57.1 NC_004686.1 + 8544 1.12 0.00043
Target:  5'- cUGGCCUCAUCGAGGAAGUCCCACCGCg -3'
miRNA:   3'- -ACCGGAGUAGCUCCUUCAGGGUGGCG- -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.