miRNA display CGI


Results 21 - 38 of 38 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
28122 3' -52.3 NC_005887.1 + 17529 0.68 0.69772
Target:  5'- cGCUCGAgg-GCGGCauGACGUcGgUCGGCg -3'
miRNA:   3'- -UGAGCUacaUGCUG--CUGCA-CgAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 36294 0.68 0.69772
Target:  5'- gGCgaagUGGUGccuCGAaaGCGUGCUCGACg -3'
miRNA:   3'- -UGa---GCUACau-GCUgcUGCACGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 3776 0.69 0.675262
Target:  5'- -aUCGcgGU-CGGCGcGCG-GCUCGACg -3'
miRNA:   3'- ugAGCuaCAuGCUGC-UGCaCGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 5099 0.69 0.675262
Target:  5'- -gUCGAucuaccUGgACGACGAgGUGCUCGcCa -3'
miRNA:   3'- ugAGCU------ACaUGCUGCUgCACGAGCuG- -5'
28122 3' -52.3 NC_005887.1 + 9584 0.69 0.652629
Target:  5'- uGC-CGGUGaGCguGACGACgGUGUUCGGCa -3'
miRNA:   3'- -UGaGCUACaUG--CUGCUG-CACGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 3562 0.69 0.652629
Target:  5'- --aCGAUGcccuugcCGACGuCGUGCUCGAUc -3'
miRNA:   3'- ugaGCUACau-----GCUGCuGCACGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 11766 0.69 0.62878
Target:  5'- cAC-CGGUGggaucuCGGCGGCGUccucgcuGCUCGGCg -3'
miRNA:   3'- -UGaGCUACau----GCUGCUGCA-------CGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 16861 0.7 0.595887
Target:  5'- ---aGGUGUACcGCGGCGcggacgGCUCGACa -3'
miRNA:   3'- ugagCUACAUGcUGCUGCa-----CGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 41504 0.7 0.562151
Target:  5'- gGCUCGA---ACGGCaagucGACgGUGCUCGGCa -3'
miRNA:   3'- -UGAGCUacaUGCUG-----CUG-CACGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 20470 0.71 0.547686
Target:  5'- cGCUCGGcaaUGUguugauggcugcucAgGGCGGCGUGUUUGACa -3'
miRNA:   3'- -UGAGCU---ACA--------------UgCUGCUGCACGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 40794 0.71 0.518043
Target:  5'- -gUCGAgGUucgugGCGGCGACGcgccGCUCGACg -3'
miRNA:   3'- ugAGCUaCA-----UGCUGCUGCa---CGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 18545 0.71 0.506148
Target:  5'- uCUCGGUGgGCGGCGGCGccgGCUucgcgggCGACa -3'
miRNA:   3'- uGAGCUACaUGCUGCUGCa--CGA-------GCUG- -5'
28122 3' -52.3 NC_005887.1 + 7692 0.72 0.497571
Target:  5'- cUUCGGUGgcgcccgcaaguacgAgGGCGAUGUGUUCGACa -3'
miRNA:   3'- uGAGCUACa--------------UgCUGCUGCACGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 6314 0.72 0.493307
Target:  5'- cAC-CGAcguggcgcaagcUGUACGGCGGCGUucugccgaacaagaGCUCGACu -3'
miRNA:   3'- -UGaGCU------------ACAUGCUGCUGCA--------------CGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 39902 0.72 0.485886
Target:  5'- -aUUGAUGUGCGACGGCG-GCcCGuCg -3'
miRNA:   3'- ugAGCUACAUGCUGCUGCaCGaGCuG- -5'
28122 3' -52.3 NC_005887.1 + 10989 0.74 0.377289
Target:  5'- cGCUCGucgaggAUGGCGugGUGCUCGGg -3'
miRNA:   3'- -UGAGCuaca--UGCUGCugCACGAGCUg -5'
28122 3' -52.3 NC_005887.1 + 40483 0.76 0.286258
Target:  5'- aGCUCGAUuacgaggcGUggcGCGACGuCGUGUUCGGCa -3'
miRNA:   3'- -UGAGCUA--------CA---UGCUGCuGCACGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 8033 1.1 0.001298
Target:  5'- aACUCGAUGUACGACGACGUGCUCGACg -3'
miRNA:   3'- -UGAGCUACAUGCUGCUGCACGAGCUG- -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.