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
12663 3' -54 NC_003345.1 + 71591 0.67 0.824693
Target:  5'- aGCUCGUCGGgggacggaAGCUCAaccucggggucgauuCCAgccCGCUCa -3'
miRNA:   3'- gCGAGCAGUUag------UCGAGU---------------GGU---GCGAG- -5'
12663 3' -54 NC_003345.1 + 35697 0.67 0.821058
Target:  5'- aGCUCgGUCGggCGGCUCgGCC-UGUUCa -3'
miRNA:   3'- gCGAG-CAGUuaGUCGAG-UGGuGCGAG- -5'
12663 3' -54 NC_003345.1 + 22947 0.67 0.811836
Target:  5'- cCGCUCGUUGaccuccuucGUCAGCUC-CUcggaagcgucgAUGCUCa -3'
miRNA:   3'- -GCGAGCAGU---------UAGUCGAGuGG-----------UGCGAG- -5'
12663 3' -54 NC_003345.1 + 69963 0.67 0.783099
Target:  5'- cCGCuUCGUCGuuGUgAGuCUCcCCACGCUg -3'
miRNA:   3'- -GCG-AGCAGU--UAgUC-GAGuGGUGCGAg -5'
12663 3' -54 NC_003345.1 + 70892 0.67 0.783099
Target:  5'- uCGCUucguacacaaCGUCAAccgaaacCAGCUCACCAUcCUCg -3'
miRNA:   3'- -GCGA----------GCAGUUa------GUCGAGUGGUGcGAG- -5'
12663 3' -54 NC_003345.1 + 53258 0.67 0.773198
Target:  5'- uCGUgaaUCGUCGccauUCAGUUaCACCuCGCUCg -3'
miRNA:   3'- -GCG---AGCAGUu---AGUCGA-GUGGuGCGAG- -5'
12663 3' -54 NC_003345.1 + 9996 0.68 0.763154
Target:  5'- uCGCUCccgacucggauGUUAcUCAGCUCACgGaacCGCUCg -3'
miRNA:   3'- -GCGAG-----------CAGUuAGUCGAGUGgU---GCGAG- -5'
12663 3' -54 NC_003345.1 + 34790 0.68 0.762142
Target:  5'- uCGCUCGUCGggaagaacAUCGaagacgcGCUCGCCGgGaCUCc -3'
miRNA:   3'- -GCGAGCAGU--------UAGU-------CGAGUGGUgC-GAG- -5'
12663 3' -54 NC_003345.1 + 32769 0.69 0.711178
Target:  5'- uGCgagagagCGGUCGGCguugaCACCGCGCUCu -3'
miRNA:   3'- gCGagca---GUUAGUCGa----GUGGUGCGAG- -5'
12663 3' -54 NC_003345.1 + 10716 0.69 0.668155
Target:  5'- aGCUCcgUAAUCAGCUCGCCaacgACGUUg -3'
miRNA:   3'- gCGAGcaGUUAGUCGAGUGG----UGCGAg -5'
12663 3' -54 NC_003345.1 + 62628 0.69 0.668155
Target:  5'- uCGCUUGagGGUCuucugagcaaccAGCUCAaCACGCUCa -3'
miRNA:   3'- -GCGAGCagUUAG------------UCGAGUgGUGCGAG- -5'
12663 3' -54 NC_003345.1 + 17738 0.72 0.527797
Target:  5'- aGCUUGUUcGUCAGCUCcACCAU-CUCg -3'
miRNA:   3'- gCGAGCAGuUAGUCGAG-UGGUGcGAG- -5'
12663 3' -54 NC_003345.1 + 20049 0.74 0.399747
Target:  5'- aGCUCaccccgGUCGAugagucUCGGCUCACCAaGCUCg -3'
miRNA:   3'- gCGAG------CAGUU------AGUCGAGUGGUgCGAG- -5'
12663 3' -54 NC_003345.1 + 25776 0.76 0.315781
Target:  5'- cCGCUCGUUGAaguUCAGCUCAacuucCCACGCc- -3'
miRNA:   3'- -GCGAGCAGUU---AGUCGAGU-----GGUGCGag -5'
12663 3' -54 NC_003345.1 + 65810 0.8 0.174623
Target:  5'- gCGCUCGaacacauacgcuUCGAcCAGCUCACCGuCGCUCg -3'
miRNA:   3'- -GCGAGC------------AGUUaGUCGAGUGGU-GCGAG- -5'
12663 3' -54 NC_003345.1 + 62744 1.1 0.001722
Target:  5'- gCGCUCGUCAAUCAGCUCACCACGCUCu -3'
miRNA:   3'- -GCGAGCAGUUAGUCGAGUGGUGCGAG- -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.