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
22350 5' -50.3 NC_005045.1 + 31125 0.66 0.896363
Target:  5'- aUGGUUAUagugugggccuggGGCAUUACCugGgCAGUGg -3'
miRNA:   3'- -GCCAAUAg------------UCGUAGUGGugC-GUCAUg -5'
22350 5' -50.3 NC_005045.1 + 23289 0.66 0.89183
Target:  5'- cCGGgu-UCGGCAUCACC-UGCAc--- -3'
miRNA:   3'- -GCCaauAGUCGUAGUGGuGCGUcaug -5'
22350 5' -50.3 NC_005045.1 + 30782 0.66 0.89183
Target:  5'- uGGUcccgaauagcUGuUCGGCGguagUGCCACGCGGUAg -3'
miRNA:   3'- gCCA----------AU-AGUCGUa---GUGGUGCGUCAUg -5'
22350 5' -50.3 NC_005045.1 + 15756 0.66 0.884038
Target:  5'- -uGUUGUCAGCgguGUCGCCGCcCAGccacUGCg -3'
miRNA:   3'- gcCAAUAGUCG---UAGUGGUGcGUC----AUG- -5'
22350 5' -50.3 NC_005045.1 + 25131 0.66 0.875956
Target:  5'- aGGgUAUCGGCGccuucgacaUCACCGCGUgaUGCc -3'
miRNA:   3'- gCCaAUAGUCGU---------AGUGGUGCGucAUG- -5'
22350 5' -50.3 NC_005045.1 + 32744 0.66 0.867589
Target:  5'- aGGUUcgCGGCAgCACCGCucCAGgACg -3'
miRNA:   3'- gCCAAuaGUCGUaGUGGUGc-GUCaUG- -5'
22350 5' -50.3 NC_005045.1 + 4668 0.66 0.858946
Target:  5'- uGGUUcgCGGCAaggaaUgGCCACGguGgaagGCu -3'
miRNA:   3'- gCCAAuaGUCGU-----AgUGGUGCguCa---UG- -5'
22350 5' -50.3 NC_005045.1 + 34247 0.67 0.850036
Target:  5'- uCGGgccgcUCAGCAUUggcCCGCGCAGg-- -3'
miRNA:   3'- -GCCaau--AGUCGUAGu--GGUGCGUCaug -5'
22350 5' -50.3 NC_005045.1 + 23435 0.67 0.850036
Target:  5'- gGGUUGaccugCGGCAggCACCGCcaccggcugGUAGUGCg -3'
miRNA:   3'- gCCAAUa----GUCGUa-GUGGUG---------CGUCAUG- -5'
22350 5' -50.3 NC_005045.1 + 22030 0.67 0.831453
Target:  5'- aCGGUgGUC-GCAuggUCGCUccgcuccuACGCGGUGCg -3'
miRNA:   3'- -GCCAaUAGuCGU---AGUGG--------UGCGUCAUG- -5'
22350 5' -50.3 NC_005045.1 + 29109 0.67 0.831453
Target:  5'- aCGGg---CAcGC-UCACCGCGCAGaACu -3'
miRNA:   3'- -GCCaauaGU-CGuAGUGGUGCGUCaUG- -5'
22350 5' -50.3 NC_005045.1 + 26122 0.68 0.801835
Target:  5'- aGGUa--CAGC-UCGCCACGguGcUGCg -3'
miRNA:   3'- gCCAauaGUCGuAGUGGUGCguC-AUG- -5'
22350 5' -50.3 NC_005045.1 + 23034 0.68 0.770418
Target:  5'- gCGGagcagCAGCGUCagcagGCCGCGCAGg-- -3'
miRNA:   3'- -GCCaaua-GUCGUAG-----UGGUGCGUCaug -5'
22350 5' -50.3 NC_005045.1 + 22074 0.69 0.748646
Target:  5'- -cGUag-CGGCGUCGCUGuCGCGGUACa -3'
miRNA:   3'- gcCAauaGUCGUAGUGGU-GCGUCAUG- -5'
22350 5' -50.3 NC_005045.1 + 1306 0.69 0.715023
Target:  5'- aGGUUcgaAGCuUCACCA-GCGGUACa -3'
miRNA:   3'- gCCAAuagUCGuAGUGGUgCGUCAUG- -5'
22350 5' -50.3 NC_005045.1 + 10564 0.7 0.645645
Target:  5'- gCGGUgg-UAGCcgUACCAgCGUAGUACc -3'
miRNA:   3'- -GCCAauaGUCGuaGUGGU-GCGUCAUG- -5'
22350 5' -50.3 NC_005045.1 + 38744 0.75 0.393206
Target:  5'- uGGUggacUUAGCuUCGCCGCGCuGUGCa -3'
miRNA:   3'- gCCAau--AGUCGuAGUGGUGCGuCAUG- -5'
22350 5' -50.3 NC_005045.1 + 26652 0.77 0.289081
Target:  5'- uGGaUAUCGGCGUCGCCACGgAaUGCg -3'
miRNA:   3'- gCCaAUAGUCGUAGUGGUGCgUcAUG- -5'
22350 5' -50.3 NC_005045.1 + 27242 1.11 0.00149
Target:  5'- gCGGUUAUCAGCAUCACCACGCAGUACg -3'
miRNA:   3'- -GCCAAUAGUCGUAGUGGUGCGUCAUG- -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.