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
29323 5' -57.4 NC_006150.1 + 88580 0.66 0.920683
Target:  5'- gGCGuCGCgaggcccagCUGggGUGCAGGGGCGCg- -3'
miRNA:   3'- -CGU-GCGa--------GACagCGUGUCUCCGCGag -5'
29323 5' -57.4 NC_006150.1 + 204925 0.66 0.920683
Target:  5'- aCugGCUCUGUUuaACGGA-GCGUUUu -3'
miRNA:   3'- cGugCGAGACAGcgUGUCUcCGCGAG- -5'
29323 5' -57.4 NC_006150.1 + 202686 0.66 0.920138
Target:  5'- gGCGCGUucacgucaUCUGUCagucauccgggcaGCcCuGAGGCGCUUg -3'
miRNA:   3'- -CGUGCG--------AGACAG-------------CGuGuCUCCGCGAG- -5'
29323 5' -57.4 NC_006150.1 + 216049 0.66 0.915127
Target:  5'- aGCACGUuucgCUGUCGgcacucuuguucCACGGuGGCGUccUCg -3'
miRNA:   3'- -CGUGCGa---GACAGC------------GUGUCuCCGCG--AG- -5'
29323 5' -57.4 NC_006150.1 + 39483 0.66 0.915127
Target:  5'- aGguUGCUagUGUCGCGCGGAucuuCGCUCa -3'
miRNA:   3'- -CguGCGAg-ACAGCGUGUCUcc--GCGAG- -5'
29323 5' -57.4 NC_006150.1 + 171820 0.66 0.909346
Target:  5'- uGCugGCUgCUGUCGCucACGGGcuGuGUGCUa -3'
miRNA:   3'- -CGugCGA-GACAGCG--UGUCU--C-CGCGAg -5'
29323 5' -57.4 NC_006150.1 + 113434 0.66 0.903341
Target:  5'- gGCGCGUcacgGUCuGCuguCGGAGGCGCa- -3'
miRNA:   3'- -CGUGCGaga-CAG-CGu--GUCUCCGCGag -5'
29323 5' -57.4 NC_006150.1 + 75797 0.66 0.903341
Target:  5'- cGCAUGCUgCUGgauaaggaGCAGcuGGCGCUCa -3'
miRNA:   3'- -CGUGCGA-GACagcg----UGUCu-CCGCGAG- -5'
29323 5' -57.4 NC_006150.1 + 70309 0.66 0.89067
Target:  5'- uCGCGCUCgg-CGCAgcUGGAaGCGCUCg -3'
miRNA:   3'- cGUGCGAGacaGCGU--GUCUcCGCGAG- -5'
29323 5' -57.4 NC_006150.1 + 181239 0.67 0.862042
Target:  5'- aGCGCGCUgucguugUUGUCGUgguGCcGAGGCGgaCg -3'
miRNA:   3'- -CGUGCGA-------GACAGCG---UGuCUCCGCgaG- -5'
29323 5' -57.4 NC_006150.1 + 106672 0.67 0.854544
Target:  5'- -aGCGCU-UGUCGUagcGCAGcuugggaAGGCGCUCc -3'
miRNA:   3'- cgUGCGAgACAGCG---UGUC-------UCCGCGAG- -5'
29323 5' -57.4 NC_006150.1 + 95652 0.68 0.815171
Target:  5'- cGCugGUUCUGuUCGCgACAGAGuaugauucUGCUCa -3'
miRNA:   3'- -CGugCGAGAC-AGCG-UGUCUCc-------GCGAG- -5'
29323 5' -57.4 NC_006150.1 + 109186 0.69 0.780194
Target:  5'- aGCGgGCUgUGUUGCguGCAgacGAGGCGCa- -3'
miRNA:   3'- -CGUgCGAgACAGCG--UGU---CUCCGCGag -5'
29323 5' -57.4 NC_006150.1 + 181467 0.69 0.752614
Target:  5'- aGCGCGCUCaGUgGCAC--GGGUGCa- -3'
miRNA:   3'- -CGUGCGAGaCAgCGUGucUCCGCGag -5'
29323 5' -57.4 NC_006150.1 + 118744 0.71 0.63552
Target:  5'- -gGCGUUCUccaccagcGUCGCACcacgaaguaaGGAGGCGCUUu -3'
miRNA:   3'- cgUGCGAGA--------CAGCGUG----------UCUCCGCGAG- -5'
29323 5' -57.4 NC_006150.1 + 140125 1.1 0.002538
Target:  5'- uGCACGCUCUGUCGCACAGAGGCGCUCc -3'
miRNA:   3'- -CGUGCGAGACAGCGUGUCUCCGCGAG- -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.