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
28549 3' -56.5 NC_005946.1 + 48614 0.66 0.823685
Target:  5'- -cCGCCCUcUCCUcGGCCUgcuCCUCGg -3'
miRNA:   3'- uuGUGGGAcAGGAaCUGGGu--GGAGCg -5'
28549 3' -56.5 NC_005946.1 + 84463 0.66 0.805833
Target:  5'- uACAUCUccuucuUGUCC-UGACCCAUUaUCGCg -3'
miRNA:   3'- uUGUGGG------ACAGGaACUGGGUGG-AGCG- -5'
28549 3' -56.5 NC_005946.1 + 47910 0.66 0.796654
Target:  5'- cGACucccuUCCUGUCCcUGGCCCucacCCUCa- -3'
miRNA:   3'- -UUGu----GGGACAGGaACUGGGu---GGAGcg -5'
28549 3' -56.5 NC_005946.1 + 93994 0.66 0.787317
Target:  5'- gGACGCCCcggccGUCC-UGACUgACCUCc- -3'
miRNA:   3'- -UUGUGGGa----CAGGaACUGGgUGGAGcg -5'
28549 3' -56.5 NC_005946.1 + 32506 0.66 0.777833
Target:  5'- uGACGuCCUUGUCCUUGAggugcuucuuuaCCCugcacucgaugGCCUCGa -3'
miRNA:   3'- -UUGU-GGGACAGGAACU------------GGG-----------UGGAGCg -5'
28549 3' -56.5 NC_005946.1 + 40062 0.67 0.768212
Target:  5'- aAACACCCUGacaUCCgcgGAuCCCGCuCUCu- -3'
miRNA:   3'- -UUGUGGGAC---AGGaa-CU-GGGUG-GAGcg -5'
28549 3' -56.5 NC_005946.1 + 20728 0.67 0.768212
Target:  5'- gGACGCCgUGgucaccagCC-UGGCCgGCCUCGa -3'
miRNA:   3'- -UUGUGGgACa-------GGaACUGGgUGGAGCg -5'
28549 3' -56.5 NC_005946.1 + 49104 0.67 0.748595
Target:  5'- aAACACCCUGgCCUUc-CCCGCCcUGUc -3'
miRNA:   3'- -UUGUGGGACaGGAAcuGGGUGGaGCG- -5'
28549 3' -56.5 NC_005946.1 + 36899 0.67 0.738619
Target:  5'- cAUACCacaCUGUCUgcGACCCGCagggCUCGCu -3'
miRNA:   3'- uUGUGG---GACAGGaaCUGGGUG----GAGCG- -5'
28549 3' -56.5 NC_005946.1 + 80275 0.67 0.728546
Target:  5'- -cUACCCUGUaccucaCCUUGGCCaauGCCgCGCc -3'
miRNA:   3'- uuGUGGGACA------GGAACUGGg--UGGaGCG- -5'
28549 3' -56.5 NC_005946.1 + 9629 0.67 0.718385
Target:  5'- aGACACCCcGUCCUcGucAUCCGCCgccucCGCc -3'
miRNA:   3'- -UUGUGGGaCAGGAaC--UGGGUGGa----GCG- -5'
28549 3' -56.5 NC_005946.1 + 91895 0.68 0.708145
Target:  5'- aAACACCCagGUUCaccgGACCCugCUUGa -3'
miRNA:   3'- -UUGUGGGa-CAGGaa--CUGGGugGAGCg -5'
28549 3' -56.5 NC_005946.1 + 11242 0.68 0.697838
Target:  5'- -cCGCCCUGcUCaggGGuCCgACCUCGCa -3'
miRNA:   3'- uuGUGGGAC-AGgaaCU-GGgUGGAGCG- -5'
28549 3' -56.5 NC_005946.1 + 3706 0.68 0.677058
Target:  5'- -uCGCCCUGUCC---ACCUGCCUCc- -3'
miRNA:   3'- uuGUGGGACAGGaacUGGGUGGAGcg -5'
28549 3' -56.5 NC_005946.1 + 18155 0.72 0.471697
Target:  5'- --gGCCUUGgCCUUGACCUGCCUCc- -3'
miRNA:   3'- uugUGGGACaGGAACUGGGUGGAGcg -5'
28549 3' -56.5 NC_005946.1 + 26423 0.73 0.404229
Target:  5'- gAGguCCCUGUCCUcgggagccggUuucaggcugcuccuGGCCCACCUCGCc -3'
miRNA:   3'- -UUguGGGACAGGA----------A--------------CUGGGUGGAGCG- -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.