miRNA display CGI


Results 1 - 20 of 43 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
28009 3' -49.5 NC_005887.1 + 39120 0.67 0.918712
Target:  5'- gGCGCGGUCGAAUcgaacaucuucuGCGag-CGcUCGCg- -3'
miRNA:   3'- -CGCGCUAGCUUA------------UGCaaaGC-AGCGgu -5'
28009 3' -49.5 NC_005887.1 + 39456 0.69 0.811746
Target:  5'- uCGCGG-CGGccgACGUguccgUCGUCGCCu -3'
miRNA:   3'- cGCGCUaGCUua-UGCAa----AGCAGCGGu -5'
28009 3' -49.5 NC_005887.1 + 17985 0.7 0.791645
Target:  5'- aGCGCGGcUCGugg----UUCGUCGCCGa -3'
miRNA:   3'- -CGCGCU-AGCuuaugcaAAGCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 35006 1.12 0.002106
Target:  5'- aGCGCGAUCGAAUACGUUUCGUCGCCAg -3'
miRNA:   3'- -CGCGCUAGCUUAUGCAAAGCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 13671 0.66 0.946895
Target:  5'- gGCGUGAUC----GCGggUUGUCGUCu -3'
miRNA:   3'- -CGCGCUAGcuuaUGCaaAGCAGCGGu -5'
28009 3' -49.5 NC_005887.1 + 9133 0.66 0.946405
Target:  5'- gGCGCGAcCGAGUgccagugcggcGCGUUcaucuggacgggcUCGUCcgGCCGc -3'
miRNA:   3'- -CGCGCUaGCUUA-----------UGCAA-------------AGCAG--CGGU- -5'
28009 3' -49.5 NC_005887.1 + 27384 0.66 0.936528
Target:  5'- uGCGCGGcguaggcgUCGAGuUGCGgcgCGUCGUa- -3'
miRNA:   3'- -CGCGCU--------AGCUU-AUGCaaaGCAGCGgu -5'
28009 3' -49.5 NC_005887.1 + 6304 0.66 0.936528
Target:  5'- aGCGCG-UCGAGgccuUGCGccUCGccggCGCCGa -3'
miRNA:   3'- -CGCGCuAGCUU----AUGCaaAGCa---GCGGU- -5'
28009 3' -49.5 NC_005887.1 + 18851 0.66 0.930892
Target:  5'- aGCGCGGcCGAAcACGUcggcaagcagaUcaagggCGUCGCCGg -3'
miRNA:   3'- -CGCGCUaGCUUaUGCA-----------Aa-----GCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 29019 0.69 0.821493
Target:  5'- uGCGCGG-CGAgauccgcgAUGCGgccggCGUUGCCGa -3'
miRNA:   3'- -CGCGCUaGCU--------UAUGCaaa--GCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 25408 0.68 0.875017
Target:  5'- cGCGCGGUUGAAgcgcucACGcaUCG-CGCCc -3'
miRNA:   3'- -CGCGCUAGCUUa-----UGCaaAGCaGCGGu -5'
28009 3' -49.5 NC_005887.1 + 6031 0.67 0.890746
Target:  5'- ---gGAUCGAGUGCGcggCGUCGaCCGc -3'
miRNA:   3'- cgcgCUAGCUUAUGCaaaGCAGC-GGU- -5'
28009 3' -49.5 NC_005887.1 + 40503 0.67 0.912168
Target:  5'- -aGUGGUcCGAGUccggcGCGUUcgUGUCGCCGa -3'
miRNA:   3'- cgCGCUA-GCUUA-----UGCAAa-GCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 29926 0.68 0.849378
Target:  5'- uCGCGAUCGcgcgcgcGCGgugUCGUUGCCc -3'
miRNA:   3'- cGCGCUAGCuua----UGCaa-AGCAGCGGu -5'
28009 3' -49.5 NC_005887.1 + 26967 0.67 0.912168
Target:  5'- cGCGCGAUC-AGcGCGg--CGUCGaCCu -3'
miRNA:   3'- -CGCGCUAGcUUaUGCaaaGCAGC-GGu -5'
28009 3' -49.5 NC_005887.1 + 4056 0.67 0.893755
Target:  5'- -gGCGA-CGGcacccugaccguugcGUGCGaagUCGUCGCCAc -3'
miRNA:   3'- cgCGCUaGCU---------------UAUGCaa-AGCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 32973 0.69 0.831021
Target:  5'- cGCGcCGAUCGAcccGUAUucgUCuGUCGCCGa -3'
miRNA:   3'- -CGC-GCUAGCU---UAUGcaaAG-CAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 32867 0.69 0.801793
Target:  5'- cCGgGGUCGGccGgGUcgUUCGUCGCCAc -3'
miRNA:   3'- cGCgCUAGCUuaUgCA--AAGCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 22975 0.67 0.905324
Target:  5'- -aGCGaAUCGAGUuga--UCGUCGCCGc -3'
miRNA:   3'- cgCGC-UAGCUUAugcaaAGCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 16190 0.67 0.905324
Target:  5'- cGCGCGAcacgaUCGAcgaggACGUcgUCGagCGCCGc -3'
miRNA:   3'- -CGCGCU-----AGCUua---UGCAa-AGCa-GCGGU- -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.