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
16390 3' -51.7 NC_004084.1 + 30840 0.66 0.905523
Target:  5'- cGCGacGUCGAaaGAGGUGGG-CGGC-CCGCu -3'
miRNA:   3'- -UGC--CAGCU--CUUCACCUaGUUGuGGUG- -5'
16390 3' -51.7 NC_004084.1 + 19078 0.66 0.905523
Target:  5'- cGCGGcCGucuacgucGAcGUcGAUCAGCACCGCg -3'
miRNA:   3'- -UGCCaGCu-------CUuCAcCUAGUUGUGGUG- -5'
16390 3' -51.7 NC_004084.1 + 22560 0.66 0.905523
Target:  5'- cGCGGUCcGGAuccGGGUCGAUAUCAg -3'
miRNA:   3'- -UGCCAGcUCUucaCCUAGUUGUGGUg -5'
16390 3' -51.7 NC_004084.1 + 35325 0.66 0.905523
Target:  5'- cUGGUCGucccAGAGGUGG-UCGACgucgAUCGCg -3'
miRNA:   3'- uGCCAGC----UCUUCACCuAGUUG----UGGUG- -5'
16390 3' -51.7 NC_004084.1 + 57884 0.66 0.898565
Target:  5'- aACGGgcaaggagaUCGAGAAucGGAU-GACGCCGCg -3'
miRNA:   3'- -UGCC---------AGCUCUUcaCCUAgUUGUGGUG- -5'
16390 3' -51.7 NC_004084.1 + 47757 0.66 0.890587
Target:  5'- cCGGUUGGGGauccggcucgccAGUGGGggcgucgccgaccUCGACGCCGa -3'
miRNA:   3'- uGCCAGCUCU------------UCACCU-------------AGUUGUGGUg -5'
16390 3' -51.7 NC_004084.1 + 26527 0.66 0.87603
Target:  5'- gGCGGUCGGGAAGUuug-UAGcCGCCAg -3'
miRNA:   3'- -UGCCAGCUCUUCAccuaGUU-GUGGUg -5'
16390 3' -51.7 NC_004084.1 + 43805 0.67 0.857141
Target:  5'- gGCGG-CGAGGAGcgccgggagaUGGAUCAuucgugggcgcgagACAuCCGCg -3'
miRNA:   3'- -UGCCaGCUCUUC----------ACCUAGU--------------UGU-GGUG- -5'
16390 3' -51.7 NC_004084.1 + 38507 0.68 0.813665
Target:  5'- uCGGccugaUCGAGAaaucgauGGUGGAUCGGCggACCAa -3'
miRNA:   3'- uGCC-----AGCUCU-------UCACCUAGUUG--UGGUg -5'
16390 3' -51.7 NC_004084.1 + 44828 0.69 0.773889
Target:  5'- gACGGuaUCGAgcugaccGAGGUcGGAUCGGC-CCGCg -3'
miRNA:   3'- -UGCC--AGCU-------CUUCA-CCUAGUUGuGGUG- -5'
16390 3' -51.7 NC_004084.1 + 26757 0.7 0.677755
Target:  5'- gACGGccaUCGAGAGGUcgcGGAUCAucccCCACg -3'
miRNA:   3'- -UGCC---AGCUCUUCA---CCUAGUugu-GGUG- -5'
16390 3' -51.7 NC_004084.1 + 8227 0.71 0.614874
Target:  5'- cACGGUUGcAGAGGgcgacgucgagacGAUCGACGCCGCu -3'
miRNA:   3'- -UGCCAGC-UCUUCac-----------CUAGUUGUGGUG- -5'
16390 3' -51.7 NC_004084.1 + 24870 0.72 0.599159
Target:  5'- cGCGGUaCGAGAGG-GGAUCAucgACAgCAg -3'
miRNA:   3'- -UGCCA-GCUCUUCaCCUAGU---UGUgGUg -5'
16390 3' -51.7 NC_004084.1 + 11437 0.76 0.381804
Target:  5'- cACcGUCGAGGAGUucGaGAUCAACAUCACg -3'
miRNA:   3'- -UGcCAGCUCUUCA--C-CUAGUUGUGGUG- -5'
16390 3' -51.7 NC_004084.1 + 43700 0.81 0.195186
Target:  5'- gGCGcGUCGAcGAAGUGGAUCAGCuucgaGCCAUu -3'
miRNA:   3'- -UGC-CAGCU-CUUCACCUAGUUG-----UGGUG- -5'
16390 3' -51.7 NC_004084.1 + 9288 1.11 0.001895
Target:  5'- gACGGUCGAGAAGUGGAUCAACACCACa -3'
miRNA:   3'- -UGCCAGCUCUUCACCUAGUUGUGGUG- -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.