miRNA display CGI


Results 1 - 18 of 18 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
30547 3' -58.2 NC_006548.1 + 13173 0.66 0.495152
Target:  5'- cGGCcuggUugGCGCGCGCGAccugcugcuuguacuGGAccaggGCGu -3'
miRNA:   3'- -CCGa---GugCGCGCGCGCU---------------CCUaa---CGCc -5'
30547 3' -58.2 NC_006548.1 + 17960 0.66 0.47783
Target:  5'- uGGCcagcCugGCGgGCGCGAGuGAUcuacgagacgaaucUGCGc -3'
miRNA:   3'- -CCGa---GugCGCgCGCGCUC-CUA--------------ACGCc -5'
30547 3' -58.2 NC_006548.1 + 1995 0.66 0.470785
Target:  5'- gGGCaaGCGCGCGCGgcugcaccaGGGGAU--CGGg -3'
miRNA:   3'- -CCGagUGCGCGCGCg--------CUCCUAacGCC- -5'
30547 3' -58.2 NC_006548.1 + 36402 0.67 0.431589
Target:  5'- cGGCcgCAUGCccaGCGCaGCGAGGAU-GCc- -3'
miRNA:   3'- -CCGa-GUGCG---CGCG-CGCUCCUAaCGcc -5'
30547 3' -58.2 NC_006548.1 + 28779 0.67 0.422091
Target:  5'- uGCUCGCGC-CGCcuggGCGAcccuGGAU-GCGGc -3'
miRNA:   3'- cCGAGUGCGcGCG----CGCU----CCUAaCGCC- -5'
30547 3' -58.2 NC_006548.1 + 33279 0.67 0.421148
Target:  5'- cGGCUUcCGUuggcagaccuccgGC-CGCGAGGAgcaUGCGGc -3'
miRNA:   3'- -CCGAGuGCG-------------CGcGCGCUCCUa--ACGCC- -5'
30547 3' -58.2 NC_006548.1 + 7795 0.67 0.41272
Target:  5'- aGGCUC-UGCGCGaccucCGCGAGGAcaa-GGa -3'
miRNA:   3'- -CCGAGuGCGCGC-----GCGCUCCUaacgCC- -5'
30547 3' -58.2 NC_006548.1 + 12811 0.68 0.376554
Target:  5'- uGCUCGCcaGUGcCGCGCGAGcGgcGCGGu -3'
miRNA:   3'- cCGAGUG--CGC-GCGCGCUCcUaaCGCC- -5'
30547 3' -58.2 NC_006548.1 + 36594 0.68 0.367852
Target:  5'- cGGCcggCAcCGCGgugcuCGCGCGGGGAU-GCGu -3'
miRNA:   3'- -CCGa--GU-GCGC-----GCGCGCUCCUAaCGCc -5'
30547 3' -58.2 NC_006548.1 + 18783 0.68 0.367852
Target:  5'- cGGCcUGCG-GCuGgGCGAGGAUcUGCGGc -3'
miRNA:   3'- -CCGaGUGCgCG-CgCGCUCCUA-ACGCC- -5'
30547 3' -58.2 NC_006548.1 + 25836 0.68 0.359289
Target:  5'- uGCUCACGUGaGCGgGAGGGccuugGCuGGg -3'
miRNA:   3'- cCGAGUGCGCgCGCgCUCCUaa---CG-CC- -5'
30547 3' -58.2 NC_006548.1 + 20497 0.69 0.310885
Target:  5'- uGCUCGC-CGCGCGUccuccucgucGAGGAcaacugccaUUGUGGg -3'
miRNA:   3'- cCGAGUGcGCGCGCG----------CUCCU---------AACGCC- -5'
30547 3' -58.2 NC_006548.1 + 26871 0.7 0.274464
Target:  5'- -cCUCGCGCGCGCGUGAGc----CGGg -3'
miRNA:   3'- ccGAGUGCGCGCGCGCUCcuaacGCC- -5'
30547 3' -58.2 NC_006548.1 + 11577 0.71 0.247851
Target:  5'- -cCUCGCGCGCGCGUGAcGAUgaugucCGGg -3'
miRNA:   3'- ccGAGUGCGCGCGCGCUcCUAac----GCC- -5'
30547 3' -58.2 NC_006548.1 + 12932 0.71 0.22932
Target:  5'- uGGCUCGCGCugaGCGCGGuGcugUGCGGc -3'
miRNA:   3'- -CCGAGUGCGcg-CGCGCUcCua-ACGCC- -5'
30547 3' -58.2 NC_006548.1 + 11753 0.76 0.113176
Target:  5'- uGgUCAUGCGCgGCGCGcggcggcgccGGGGUUGCGGc -3'
miRNA:   3'- cCgAGUGCGCG-CGCGC----------UCCUAACGCC- -5'
30547 3' -58.2 NC_006548.1 + 11630 0.76 0.106997
Target:  5'- --gUCACGCGCGCGCGAGGuc-GCu- -3'
miRNA:   3'- ccgAGUGCGCGCGCGCUCCuaaCGcc -5'
30547 3' -58.2 NC_006548.1 + 26815 1.12 0.000245
Target:  5'- cGGCUCACGCGCGCGCGAGGAUUGCGGc -3'
miRNA:   3'- -CCGAGUGCGCGCGCGCUCCUAACGCC- -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.