miRNA display CGI


Results 1 - 16 of 16 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
28382 5' -57.9 NC_005946.1 + 21915 0.66 0.775629
Target:  5'- uUGugGGCCGuCACCGGacugguccucaacgUCGCuGUGAGg -3'
miRNA:   3'- cGCugCCGGU-GUGGCC--------------GGCGcUAUUC- -5'
28382 5' -57.9 NC_005946.1 + 40381 0.66 0.75955
Target:  5'- cCGACauuGGCCACGCagacaccGCCGCGGcgUAGGa -3'
miRNA:   3'- cGCUG---CCGGUGUGgc-----CGGCGCU--AUUC- -5'
28382 5' -57.9 NC_005946.1 + 17099 0.66 0.75955
Target:  5'- uGUGugGGCCGaugACUgGGCUaCGAUGAGa -3'
miRNA:   3'- -CGCugCCGGUg--UGG-CCGGcGCUAUUC- -5'
28382 5' -57.9 NC_005946.1 + 56382 0.66 0.749936
Target:  5'- uGUGACGGCCGaguccaggaGCCcGUCGUGGUAc- -3'
miRNA:   3'- -CGCUGCCGGUg--------UGGcCGGCGCUAUuc -5'
28382 5' -57.9 NC_005946.1 + 16214 0.67 0.740217
Target:  5'- -aGACGGUgGCACCGuCCGCcaugGAGg -3'
miRNA:   3'- cgCUGCCGgUGUGGCcGGCGcua-UUC- -5'
28382 5' -57.9 NC_005946.1 + 74509 0.67 0.730404
Target:  5'- gGCGGCGGCCuccuCcUCGGCCuCGAc--- -3'
miRNA:   3'- -CGCUGCCGGu---GuGGCCGGcGCUauuc -5'
28382 5' -57.9 NC_005946.1 + 20417 0.67 0.730404
Target:  5'- -aGAUGGCCcagAUGgCGGCCGCGGc--- -3'
miRNA:   3'- cgCUGCCGG---UGUgGCCGGCGCUauuc -5'
28382 5' -57.9 NC_005946.1 + 40736 0.67 0.720506
Target:  5'- -aGGCGGCgGCGCCGcuaGCgGCGAc--- -3'
miRNA:   3'- cgCUGCCGgUGUGGC---CGgCGCUauuc -5'
28382 5' -57.9 NC_005946.1 + 98623 0.67 0.69039
Target:  5'- uGCGGCGGCCGUGgUGGCCucaGCGGacAGg -3'
miRNA:   3'- -CGCUGCCGGUGUgGCCGG---CGCUauUC- -5'
28382 5' -57.9 NC_005946.1 + 63269 0.68 0.680242
Target:  5'- gGCGGCGGCCGcCGCaaaGGUC-UGAUAGa -3'
miRNA:   3'- -CGCUGCCGGU-GUGg--CCGGcGCUAUUc -5'
28382 5' -57.9 NC_005946.1 + 56139 0.69 0.577961
Target:  5'- gGgGAUGGCgACugCGGCUGUGGccgAAGu -3'
miRNA:   3'- -CgCUGCCGgUGugGCCGGCGCUa--UUC- -5'
28382 5' -57.9 NC_005946.1 + 79004 0.7 0.547699
Target:  5'- cCGGCGGCCACGgaGGCgGCGu---- -3'
miRNA:   3'- cGCUGCCGGUGUggCCGgCGCuauuc -5'
28382 5' -57.9 NC_005946.1 + 59749 0.71 0.479351
Target:  5'- aGCu-UGGCCACAgCGGCUGUGAaagUAAGa -3'
miRNA:   3'- -CGcuGCCGGUGUgGCCGGCGCU---AUUC- -5'
28382 5' -57.9 NC_005946.1 + 22196 0.73 0.364221
Target:  5'- aGCGGCGGCUACccucgggcuggcuGCCcuGGCCGCGGc--- -3'
miRNA:   3'- -CGCUGCCGGUG-------------UGG--CCGGCGCUauuc -5'
28382 5' -57.9 NC_005946.1 + 12893 0.75 0.284067
Target:  5'- cGCGuCGGCCGCGgaGGCCGUggcucaGGUGAGg -3'
miRNA:   3'- -CGCuGCCGGUGUggCCGGCG------CUAUUC- -5'
28382 5' -57.9 NC_005946.1 + 45874 1.1 0.001262
Target:  5'- cGCGACGGCCACACCGGCCGCGAUAAGc -3'
miRNA:   3'- -CGCUGCCGGUGUGGCCGGCGCUAUUC- -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.