miRNA display CGI


Results 1 - 14 of 14 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
28127 3' -55.2 NC_005887.1 + 31350 0.66 0.672406
Target:  5'- -cCGGUCgaGCUCGACGA---GGCGaUCGa -3'
miRNA:   3'- caGUCAG--CGAGCUGCUaguCCGC-AGC- -5'
28127 3' -55.2 NC_005887.1 + 5909 0.66 0.672406
Target:  5'- cUCGGUCGC-CaGGCGAugcgcaaguUCGGuGUGUCGg -3'
miRNA:   3'- cAGUCAGCGaG-CUGCU---------AGUC-CGCAGC- -5'
28127 3' -55.2 NC_005887.1 + 30660 0.66 0.66132
Target:  5'- --gAGUUGCUCG-CGAUCcGGC-UCGa -3'
miRNA:   3'- cagUCAGCGAGCuGCUAGuCCGcAGC- -5'
28127 3' -55.2 NC_005887.1 + 12345 0.66 0.66132
Target:  5'- ---cGUCGCUCGcCGGcCAGGCGg-- -3'
miRNA:   3'- caguCAGCGAGCuGCUaGUCCGCagc -5'
28127 3' -55.2 NC_005887.1 + 11543 0.66 0.66132
Target:  5'- aUCAG-CaGCUCGGCGcgCAGcGCG-CGg -3'
miRNA:   3'- cAGUCaG-CGAGCUGCuaGUC-CGCaGC- -5'
28127 3' -55.2 NC_005887.1 + 28231 0.67 0.62794
Target:  5'- ---uGUUGCUCGACGAcCAgucGGCGUgCGa -3'
miRNA:   3'- caguCAGCGAGCUGCUaGU---CCGCA-GC- -5'
28127 3' -55.2 NC_005887.1 + 26172 0.67 0.62794
Target:  5'- aUCGuGUCGCgcgCGAUGAUCGGGUa--- -3'
miRNA:   3'- cAGU-CAGCGa--GCUGCUAGUCCGcagc -5'
28127 3' -55.2 NC_005887.1 + 33946 0.67 0.616807
Target:  5'- -aCGG-CGCUCGGCGAgCAcgucgcgugcGGCGUCc -3'
miRNA:   3'- caGUCaGCGAGCUGCUaGU----------CCGCAGc -5'
28127 3' -55.2 NC_005887.1 + 15892 0.67 0.572507
Target:  5'- cUCGGUgCGCUCGACGcgCAGcuggccgaccuGCGUUc -3'
miRNA:   3'- cAGUCA-GCGAGCUGCuaGUC-----------CGCAGc -5'
28127 3' -55.2 NC_005887.1 + 15443 0.67 0.572507
Target:  5'- aUCAG-CGCggCGuCGAccugcUCGGGCGUCa -3'
miRNA:   3'- cAGUCaGCGa-GCuGCU-----AGUCCGCAGc -5'
28127 3' -55.2 NC_005887.1 + 10733 0.68 0.561535
Target:  5'- cUCAGUUGCUCGA-GAUCGuuguCGUCGa -3'
miRNA:   3'- cAGUCAGCGAGCUgCUAGUcc--GCAGC- -5'
28127 3' -55.2 NC_005887.1 + 26082 0.69 0.507697
Target:  5'- cGUCAGcggccCGCgCGGCGuuUCAuGGCGUCGa -3'
miRNA:   3'- -CAGUCa----GCGaGCUGCu-AGU-CCGCAGC- -5'
28127 3' -55.2 NC_005887.1 + 40445 0.7 0.417044
Target:  5'- aUCGG-CGCUCGACauGAUCccgaaugccGGCGUCGa -3'
miRNA:   3'- cAGUCaGCGAGCUG--CUAGu--------CCGCAGC- -5'
28127 3' -55.2 NC_005887.1 + 11686 1.08 0.001024
Target:  5'- gGUCAGUCGCUCGACGAUCAGGCGUCGc -3'
miRNA:   3'- -CAGUCAGCGAGCUGCUAGUCCGCAGC- -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.