miRNA display CGI


Results 1 - 20 of 56 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
15740 5' -54 NC_004065.1 + 4961 0.67 0.971655
Target:  5'- uCUCCUgGAGCGGcCGCCAucacgacgugccucGGG-CUUCa -3'
miRNA:   3'- -GAGGAgCUUGUC-GCGGU--------------CCUaGAAGc -5'
15740 5' -54 NC_004065.1 + 17211 0.66 0.986168
Target:  5'- -cCCUUGAGCAGCGCCaaagcguccgaaAGGGccucagcugccucgaUCUcgUCGa -3'
miRNA:   3'- gaGGAGCUUGUCGCGG------------UCCU---------------AGA--AGC- -5'
15740 5' -54 NC_004065.1 + 18447 0.72 0.820117
Target:  5'- -aCCUCGGACAGcCGCC-GGAUUccUCGa -3'
miRNA:   3'- gaGGAGCUUGUC-GCGGuCCUAGa-AGC- -5'
15740 5' -54 NC_004065.1 + 50580 0.72 0.83178
Target:  5'- aUCCUCGAGCacccuacugucuucgGGCGCCGGccUCUUCc -3'
miRNA:   3'- gAGGAGCUUG---------------UCGCGGUCcuAGAAGc -5'
15740 5' -54 NC_004065.1 + 52057 0.66 0.985507
Target:  5'- uCUCCUCGGcgaaGCGGCGuucgcgagaaccCCAGGAgaagCggCGg -3'
miRNA:   3'- -GAGGAGCU----UGUCGC------------GGUCCUa---GaaGC- -5'
15740 5' -54 NC_004065.1 + 56794 0.66 0.983752
Target:  5'- gCUUaUCGAugAGCGCCGuGaGAUCgUCGg -3'
miRNA:   3'- -GAGgAGCUugUCGCGGU-C-CUAGaAGC- -5'
15740 5' -54 NC_004065.1 + 60703 0.67 0.975088
Target:  5'- -gUUUCGAACGGCGCgCGGGA-CUUa- -3'
miRNA:   3'- gaGGAGCUUGUCGCG-GUCCUaGAAgc -5'
15740 5' -54 NC_004065.1 + 61812 0.69 0.934438
Target:  5'- --gCUCGGACGGCGCUucaucggauucggAGGcgccAUCUUCGg -3'
miRNA:   3'- gagGAGCUUGUCGCGG-------------UCC----UAGAAGC- -5'
15740 5' -54 NC_004065.1 + 73112 0.66 0.987114
Target:  5'- uUCCUCGu-CGGUGCCggcggAGGAUCg--- -3'
miRNA:   3'- gAGGAGCuuGUCGCGG-----UCCUAGaagc -5'
15740 5' -54 NC_004065.1 + 76732 0.69 0.91928
Target:  5'- aCUCCUCGGcggggacgggcGCGGCGCCGGcGG-CcUCGu -3'
miRNA:   3'- -GAGGAGCU-----------UGUCGCGGUC-CUaGaAGC- -5'
15740 5' -54 NC_004065.1 + 80852 0.67 0.977515
Target:  5'- ---aUCGGACgAGCGCCAGGccagGUCUcCGg -3'
miRNA:   3'- gaggAGCUUG-UCGCGGUCC----UAGAaGC- -5'
15740 5' -54 NC_004065.1 + 83414 0.66 0.985507
Target:  5'- aUCCU--GACGGCGuCCAGGGUg-UCGa -3'
miRNA:   3'- gAGGAgcUUGUCGC-GGUCCUAgaAGC- -5'
15740 5' -54 NC_004065.1 + 86310 0.67 0.969672
Target:  5'- uCUCgCUCGc-CGGCGCCGaccuGGUCUUCGu -3'
miRNA:   3'- -GAG-GAGCuuGUCGCGGUc---CUAGAAGC- -5'
15740 5' -54 NC_004065.1 + 91507 0.67 0.977515
Target:  5'- aUCCUCG-ACGaCGUCgAGGAUCUcgUCGg -3'
miRNA:   3'- gAGGAGCuUGUcGCGG-UCCUAGA--AGC- -5'
15740 5' -54 NC_004065.1 + 100389 0.69 0.91928
Target:  5'- gUCCUUGGGCAGCaGCCGgcGGGUCcagUUCu -3'
miRNA:   3'- gAGGAGCUUGUCG-CGGU--CCUAG---AAGc -5'
15740 5' -54 NC_004065.1 + 102546 0.74 0.728716
Target:  5'- gUCCUCGucgguGGCGCCGGGGUCgggUCc -3'
miRNA:   3'- gAGGAGCuug--UCGCGGUCCUAGa--AGc -5'
15740 5' -54 NC_004065.1 + 102648 0.7 0.901561
Target:  5'- gUCCUCGAACGGCGa---GAUCUcUCGg -3'
miRNA:   3'- gAGGAGCUUGUCGCggucCUAGA-AGC- -5'
15740 5' -54 NC_004065.1 + 103209 0.66 0.981639
Target:  5'- -cCCUCGAGuggccacCGGgGCCGGGAUCc--- -3'
miRNA:   3'- gaGGAGCUU-------GUCgCGGUCCUAGaagc -5'
15740 5' -54 NC_004065.1 + 109515 0.72 0.794062
Target:  5'- aUCgUCGAGCGGCGCCaagagGGGGUCg--- -3'
miRNA:   3'- gAGgAGCUUGUCGCGG-----UCCUAGaagc -5'
15740 5' -54 NC_004065.1 + 115849 0.66 0.987114
Target:  5'- cCUCCUCGuacgagucgggGACGGCGuuguagacCCAGuuucGGUCUUCGu -3'
miRNA:   3'- -GAGGAGC-----------UUGUCGC--------GGUC----CUAGAAGC- -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.