miRNA display CGI


Results 1 - 20 of 47 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
25309 5' -57.6 NC_005336.1 + 13809 0.66 0.80589
Target:  5'- -gCGCgaaGGCCGCCAGcuccucGCGCGGCa--- -3'
miRNA:   3'- gaGCGa--CCGGUGGUC------UGUGUCGagau -5'
25309 5' -57.6 NC_005336.1 + 102065 0.66 0.80589
Target:  5'- -gCGCUGGUCACCuu-CACGGUgaacaUCUAc -3'
miRNA:   3'- gaGCGACCGGUGGucuGUGUCG-----AGAU- -5'
25309 5' -57.6 NC_005336.1 + 75796 0.66 0.804992
Target:  5'- -cCGCaUGGCCGCCuccgagaAGACGCGGUcCUu -3'
miRNA:   3'- gaGCG-ACCGGUGG-------UCUGUGUCGaGAu -5'
25309 5' -57.6 NC_005336.1 + 39877 0.66 0.796843
Target:  5'- uUCG-UGGUCGCCGGGCGgcguccgccCGGCUCg- -3'
miRNA:   3'- gAGCgACCGGUGGUCUGU---------GUCGAGau -5'
25309 5' -57.6 NC_005336.1 + 102877 0.66 0.796843
Target:  5'- -gCGCUGGCCAU-GGACG-AGCUCg- -3'
miRNA:   3'- gaGCGACCGGUGgUCUGUgUCGAGau -5'
25309 5' -57.6 NC_005336.1 + 88944 0.66 0.778301
Target:  5'- gCUUGCUGGUCuCgCGG-UACAGCUCg- -3'
miRNA:   3'- -GAGCGACCGGuG-GUCuGUGUCGAGau -5'
25309 5' -57.6 NC_005336.1 + 127847 0.66 0.778301
Target:  5'- -cUGCUGGCCG-CGGGCGCGgaccccgcGCUCUc -3'
miRNA:   3'- gaGCGACCGGUgGUCUGUGU--------CGAGAu -5'
25309 5' -57.6 NC_005336.1 + 68232 0.66 0.778301
Target:  5'- cCUCGCgcguGCCGCUgccgacGGACGCGGCgCUGg -3'
miRNA:   3'- -GAGCGac--CGGUGG------UCUGUGUCGaGAU- -5'
25309 5' -57.6 NC_005336.1 + 76382 0.66 0.778301
Target:  5'- aCUCGUcgaUGaCCACgCAGACGCGGCUg-- -3'
miRNA:   3'- -GAGCG---ACcGGUG-GUCUGUGUCGAgau -5'
25309 5' -57.6 NC_005336.1 + 75954 0.66 0.778301
Target:  5'- uCUCGgaGGCgGCCA--UGCGGCUCUu -3'
miRNA:   3'- -GAGCgaCCGgUGGUcuGUGUCGAGAu -5'
25309 5' -57.6 NC_005336.1 + 67609 0.66 0.776416
Target:  5'- uCUCGCgcgcgucgauagGGCCGCCGucguccGGCGgCGGCUCg- -3'
miRNA:   3'- -GAGCGa-----------CCGGUGGU------CUGU-GUCGAGau -5'
25309 5' -57.6 NC_005336.1 + 132068 0.66 0.768824
Target:  5'- cCUCGCUgGGCCcggcguCCAG-CGCGuGCUCg- -3'
miRNA:   3'- -GAGCGA-CCGGu-----GGUCuGUGU-CGAGau -5'
25309 5' -57.6 NC_005336.1 + 15117 0.66 0.768824
Target:  5'- aCUgGCUGGCCG-CGGAC--GGCUCg- -3'
miRNA:   3'- -GAgCGACCGGUgGUCUGugUCGAGau -5'
25309 5' -57.6 NC_005336.1 + 79974 0.66 0.768824
Target:  5'- -aCGCUGGCgCGCC--GCACGGCgUCa- -3'
miRNA:   3'- gaGCGACCG-GUGGucUGUGUCG-AGau -5'
25309 5' -57.6 NC_005336.1 + 25400 0.66 0.76787
Target:  5'- gCUCGCcGGCCACCGccgcgucGAUcucCAGCUCc- -3'
miRNA:   3'- -GAGCGaCCGGUGGU-------CUGu--GUCGAGau -5'
25309 5' -57.6 NC_005336.1 + 43856 0.66 0.76787
Target:  5'- -gCGCUGGCCAaCGGAUGCgacuucuuccccgGGCUCg- -3'
miRNA:   3'- gaGCGACCGGUgGUCUGUG-------------UCGAGau -5'
25309 5' -57.6 NC_005336.1 + 25778 0.67 0.743623
Target:  5'- cCUCGCggucgaagaUGGCCACCucggcgacgagcuccGGcgaGCGCGGCUCg- -3'
miRNA:   3'- -GAGCG---------ACCGGUGG---------------UC---UGUGUCGAGau -5'
25309 5' -57.6 NC_005336.1 + 88906 0.67 0.739682
Target:  5'- -gCGCUGGUgcUGCgAGGCGCGGaCUCUGu -3'
miRNA:   3'- gaGCGACCG--GUGgUCUGUGUC-GAGAU- -5'
25309 5' -57.6 NC_005336.1 + 97548 0.67 0.739682
Target:  5'- -aCGaUGGCCACCAuGGCGCggucgAGCUCg- -3'
miRNA:   3'- gaGCgACCGGUGGU-CUGUG-----UCGAGau -5'
25309 5' -57.6 NC_005336.1 + 113036 0.67 0.729762
Target:  5'- -gUGCUcGGCC-CCAGcGCGCAGUUCa- -3'
miRNA:   3'- gaGCGA-CCGGuGGUC-UGUGUCGAGau -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.