miRNA display CGI


Results 1 - 20 of 132 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
23694 3' -64.9 NC_005261.1 + 2894 0.66 0.497093
Target:  5'- cGGCCCCGuccCCGG-GCCCCcccAGCUCCu -3'
miRNA:   3'- -UUGGGGC---GGCCuCGGGGac-UUGGGGc -5'
23694 3' -64.9 NC_005261.1 + 82424 0.74 0.15897
Target:  5'- cGGCCCCGCCGuccgcGCCCCcGGccgGCCCCGc -3'
miRNA:   3'- -UUGGGGCGGCcu---CGGGGaCU---UGGGGC- -5'
23694 3' -64.9 NC_005261.1 + 35686 0.73 0.162874
Target:  5'- -cCCCCGCCGGcgAGCCCCggugggccgGGggcucgguggcgGCCCCGg -3'
miRNA:   3'- uuGGGGCGGCC--UCGGGGa--------CU------------UGGGGC- -5'
23694 3' -64.9 NC_005261.1 + 9513 0.73 0.17094
Target:  5'- gGACCCCGCCgacgauccuGGAGCCUCgccGAcgACCCCc -3'
miRNA:   3'- -UUGGGGCGG---------CCUCGGGGa--CU--UGGGGc -5'
23694 3' -64.9 NC_005261.1 + 19996 0.73 0.179361
Target:  5'- -uCCCCgGCCGcGGCCCCUGAcccGCaCCCGu -3'
miRNA:   3'- uuGGGG-CGGCcUCGGGGACU---UG-GGGC- -5'
23694 3' -64.9 NC_005261.1 + 51396 0.73 0.181089
Target:  5'- gAACUCCGCgagCGGAGCCCgCgcgcccaccgccugcUGGGCCCCGg -3'
miRNA:   3'- -UUGGGGCG---GCCUCGGG-G---------------ACUUGGGGC- -5'
23694 3' -64.9 NC_005261.1 + 84283 0.72 0.197313
Target:  5'- -gUgCCGCCGGcGGCCCCg--GCCCCGg -3'
miRNA:   3'- uuGgGGCGGCC-UCGGGGacuUGGGGC- -5'
23694 3' -64.9 NC_005261.1 + 30705 0.72 0.197313
Target:  5'- gAGgCCCGCgGGAGCCCCggcgccGGGCCgCCa -3'
miRNA:   3'- -UUgGGGCGgCCUCGGGGa-----CUUGG-GGc -5'
23694 3' -64.9 NC_005261.1 + 109894 0.72 0.202039
Target:  5'- cGCCCCGg-GGcuacAGCCCCUGGACCgCCGg -3'
miRNA:   3'- uUGGGGCggCC----UCGGGGACUUGG-GGC- -5'
23694 3' -64.9 NC_005261.1 + 9918 0.74 0.15897
Target:  5'- cGCCCCaGCCGGccuGCCCCggcGAGCCCa- -3'
miRNA:   3'- uUGGGG-CGGCCu--CGGGGa--CUUGGGgc -5'
23694 3' -64.9 NC_005261.1 + 9861 0.74 0.15897
Target:  5'- cGCCCCaGCCGGccuGCCCCggcGAGCCCa- -3'
miRNA:   3'- uUGGGG-CGGCCu--CGGGGa--CUUGGGgc -5'
23694 3' -64.9 NC_005261.1 + 78089 0.74 0.151416
Target:  5'- uGGCCCCcgcGCCGGcccaGGCCCCg--GCCCCGg -3'
miRNA:   3'- -UUGGGG---CGGCC----UCGGGGacuUGGGGC- -5'
23694 3' -64.9 NC_005261.1 + 37727 0.77 0.085359
Target:  5'- --gCCCGCCGGAGCCCCccgucGCCCCc -3'
miRNA:   3'- uugGGGCGGCCUCGGGGacu--UGGGGc -5'
23694 3' -64.9 NC_005261.1 + 68751 0.77 0.087549
Target:  5'- aAGCgCCCGCCGGGGCgCCgcgGAGCCgCCGu -3'
miRNA:   3'- -UUG-GGGCGGCCUCGgGGa--CUUGG-GGC- -5'
23694 3' -64.9 NC_005261.1 + 2705 0.76 0.101852
Target:  5'- uGGCCggCGCCGG-GCCCCUG-GCCCCGg -3'
miRNA:   3'- -UUGGg-GCGGCCuCGGGGACuUGGGGC- -5'
23694 3' -64.9 NC_005261.1 + 116 0.76 0.109805
Target:  5'- cGCCCgCGCCGGcgccGCCCCUGGugCUCGc -3'
miRNA:   3'- uUGGG-GCGGCCu---CGGGGACUugGGGC- -5'
23694 3' -64.9 NC_005261.1 + 137799 0.76 0.109805
Target:  5'- cGCCCgCGCCGGcgccGCCCCUGGugCUCGc -3'
miRNA:   3'- uUGGG-GCGGCCu---CGGGGACUugGGGC- -5'
23694 3' -64.9 NC_005261.1 + 34608 0.76 0.112583
Target:  5'- cGGCCUggccgacgCGCUGGAGCCCCUGAuaggcgaggagGCCCCc -3'
miRNA:   3'- -UUGGG--------GCGGCCUCGGGGACU-----------UGGGGc -5'
23694 3' -64.9 NC_005261.1 + 19872 0.76 0.115426
Target:  5'- aGACCCCGCCGGcgGGCCCgUcGucGCCCCa -3'
miRNA:   3'- -UUGGGGCGGCC--UCGGGgA-Cu-UGGGGc -5'
23694 3' -64.9 NC_005261.1 + 11653 0.74 0.147762
Target:  5'- gAGCCCCGCCGGAGCCCCUn------- -3'
miRNA:   3'- -UUGGGGCGGCCUCGGGGAcuuggggc -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.