miRNA display CGI


Results 1 - 20 of 67 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
12479 3' -58.2 NC_003324.1 + 48427 1.1 0.00051
Target:  5'- uCACCGCCUCAUCGAAGAGCGCCGCGCc -3'
miRNA:   3'- -GUGGCGGAGUAGCUUCUCGCGGCGCG- -5'
12479 3' -58.2 NC_003324.1 + 1631 0.8 0.081024
Target:  5'- gCGCCcuuuCUUCAUCGggGccauAGCGCCGCGCa -3'
miRNA:   3'- -GUGGc---GGAGUAGCuuC----UCGCGGCGCG- -5'
12479 3' -58.2 NC_003324.1 + 47107 0.79 0.090593
Target:  5'- aACCGCCUCaAUCGAcGAGauaGCCGCuGCg -3'
miRNA:   3'- gUGGCGGAG-UAGCUuCUCg--CGGCG-CG- -5'
12479 3' -58.2 NC_003324.1 + 38077 0.75 0.169608
Target:  5'- aCugCGCCUUcuggCGAAGcgcgucGGCGCCGUGCu -3'
miRNA:   3'- -GugGCGGAGua--GCUUC------UCGCGGCGCG- -5'
12479 3' -58.2 NC_003324.1 + 14602 0.75 0.178837
Target:  5'- cCAgCGCCUUGUCGcGGAcGCccuGCCGCGCa -3'
miRNA:   3'- -GUgGCGGAGUAGCuUCU-CG---CGGCGCG- -5'
12479 3' -58.2 NC_003324.1 + 3170 0.74 0.209237
Target:  5'- -uUCGCCUCGaauggcaaGAgcgGGAGCGCCGUGCg -3'
miRNA:   3'- guGGCGGAGUag------CU---UCUCGCGGCGCG- -5'
12479 3' -58.2 NC_003324.1 + 31525 0.73 0.23131
Target:  5'- cCGCCGuCCUCGUCGuGAGAauggccgccacgcGCGCC-CGCg -3'
miRNA:   3'- -GUGGC-GGAGUAGC-UUCU-------------CGCGGcGCG- -5'
12479 3' -58.2 NC_003324.1 + 21627 0.73 0.232494
Target:  5'- aACCGCCUCGUCGcgcugcaucacaucGAuGCGCCGUGg -3'
miRNA:   3'- gUGGCGGAGUAGCuu------------CU-CGCGGCGCg -5'
12479 3' -58.2 NC_003324.1 + 27834 0.73 0.243374
Target:  5'- aGCCGCUgguguagUUGUCGAGGuaGGCGgCGCGCg -3'
miRNA:   3'- gUGGCGG-------AGUAGCUUC--UCGCgGCGCG- -5'
12479 3' -58.2 NC_003324.1 + 48641 0.72 0.2566
Target:  5'- cCGCCGCaacaUCAUCGGcauGAGCcaggagacgcugGCUGCGCa -3'
miRNA:   3'- -GUGGCGg---AGUAGCUu--CUCG------------CGGCGCG- -5'
12479 3' -58.2 NC_003324.1 + 12885 0.72 0.269737
Target:  5'- -uUCGCCaUCGUCGAuGGGCGCgGUGUu -3'
miRNA:   3'- guGGCGG-AGUAGCUuCUCGCGgCGCG- -5'
12479 3' -58.2 NC_003324.1 + 1421 0.71 0.290451
Target:  5'- -uUCGCCUCGUCGAGcAGCG-CGaCGCa -3'
miRNA:   3'- guGGCGGAGUAGCUUcUCGCgGC-GCG- -5'
12479 3' -58.2 NC_003324.1 + 28607 0.71 0.303467
Target:  5'- gGCagGCCUCAguggucucggucCGAAGGGCGCcCGCGUu -3'
miRNA:   3'- gUGg-CGGAGUa-----------GCUUCUCGCG-GCGCG- -5'
12479 3' -58.2 NC_003324.1 + 39536 0.71 0.30494
Target:  5'- aGCCGucguCCUCGUCGAccacggGGAGCGUCcCGCc -3'
miRNA:   3'- gUGGC----GGAGUAGCU------UCUCGCGGcGCG- -5'
12479 3' -58.2 NC_003324.1 + 54790 0.7 0.327703
Target:  5'- aGCuCGCUcgCAUCGcAGAcCGCCGCGCc -3'
miRNA:   3'- gUG-GCGGa-GUAGCuUCUcGCGGCGCG- -5'
12479 3' -58.2 NC_003324.1 + 8147 0.7 0.327703
Target:  5'- uCACCuCCUCGacgaaguugcccUCGuuGAGCGCCaGUGCg -3'
miRNA:   3'- -GUGGcGGAGU------------AGCuuCUCGCGG-CGCG- -5'
12479 3' -58.2 NC_003324.1 + 47644 0.7 0.332404
Target:  5'- gGCCGCCaUCGUCGAgcuguggcacgccGGuGCGCUggacaguuccgucgGCGCg -3'
miRNA:   3'- gUGGCGG-AGUAGCU-------------UCuCGCGG--------------CGCG- -5'
12479 3' -58.2 NC_003324.1 + 25412 0.7 0.335565
Target:  5'- cUACCGuCCUCGcgguaGAAG-GCGuuGCGCa -3'
miRNA:   3'- -GUGGC-GGAGUag---CUUCuCGCggCGCG- -5'
12479 3' -58.2 NC_003324.1 + 48079 0.7 0.335565
Target:  5'- gAUCGCUUCAU-GAGGAucGCGCCGaCGUg -3'
miRNA:   3'- gUGGCGGAGUAgCUUCU--CGCGGC-GCG- -5'
12479 3' -58.2 NC_003324.1 + 32414 0.7 0.338748
Target:  5'- uGCCGCUaggCAggccaugcaggaucCGGAGAugcgGCGCCGCGCa -3'
miRNA:   3'- gUGGCGGa--GUa-------------GCUUCU----CGCGGCGCG- -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.