miRNA display CGI


Results 1 - 14 of 14 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
28455 3' -61.2 NC_005946.1 + 98119 0.66 0.575377
Target:  5'- gGGCACagU-GCGUcaucgucgucGACCCCCGCCGaucCCa -3'
miRNA:   3'- -UCGUGagAcCGCA----------CUGGGGGUGGC---GG- -5'
28455 3' -61.2 NC_005946.1 + 103236 0.66 0.555451
Target:  5'- cGUACUC-GGCc-GGCCCCUGCuaCGCCg -3'
miRNA:   3'- uCGUGAGaCCGcaCUGGGGGUG--GCGG- -5'
28455 3' -61.2 NC_005946.1 + 77950 0.67 0.545563
Target:  5'- aAGCACUCUGcgagccuccucGCGUGGuCCUgCACgcucuCGCCu -3'
miRNA:   3'- -UCGUGAGAC-----------CGCACU-GGGgGUG-----GCGG- -5'
28455 3' -61.2 NC_005946.1 + 42178 0.67 0.545563
Target:  5'- cGCugUCUGGgaugGUGGCCUCCAUcacggCGCa -3'
miRNA:   3'- uCGugAGACCg---CACUGGGGGUG-----GCGg -5'
28455 3' -61.2 NC_005946.1 + 66069 0.67 0.545563
Target:  5'- uAGgGCUCUGGCuaUGGCCgCgGCUGCg -3'
miRNA:   3'- -UCgUGAGACCGc-ACUGGgGgUGGCGg -5'
28455 3' -61.2 NC_005946.1 + 103649 0.67 0.525964
Target:  5'- uGGUACUC-GGCccacaggGGCCCCgaccaggaCGCCGCCc -3'
miRNA:   3'- -UCGUGAGaCCGca-----CUGGGG--------GUGGCGG- -5'
28455 3' -61.2 NC_005946.1 + 46750 0.67 0.497086
Target:  5'- gGGCGCUCugagUGGCGaUGGCCUUCAugagacUCGCUa -3'
miRNA:   3'- -UCGUGAG----ACCGC-ACUGGGGGU------GGCGG- -5'
28455 3' -61.2 NC_005946.1 + 19410 0.67 0.497086
Target:  5'- cAGgACggCUGcCGUGugccucaucuugGCCUCCACCGCCa -3'
miRNA:   3'- -UCgUGa-GACcGCAC------------UGGGGGUGGCGG- -5'
28455 3' -61.2 NC_005946.1 + 102627 0.68 0.468943
Target:  5'- cGGCAgugaggCUGGCGgcucccGACCCCaggCACCGCa -3'
miRNA:   3'- -UCGUga----GACCGCa-----CUGGGG---GUGGCGg -5'
28455 3' -61.2 NC_005946.1 + 57243 0.68 0.468943
Target:  5'- cAGCuC-CUGcGCGcaGGCCCCCAUCGCa -3'
miRNA:   3'- -UCGuGaGAC-CGCa-CUGGGGGUGGCGg -5'
28455 3' -61.2 NC_005946.1 + 14959 0.68 0.450641
Target:  5'- cGGCGuCUgUGGCagcacGUG-CCUCCACCGUCc -3'
miRNA:   3'- -UCGU-GAgACCG-----CACuGGGGGUGGCGG- -5'
28455 3' -61.2 NC_005946.1 + 14204 0.7 0.36551
Target:  5'- cGCACUCUGG-GU--CCCCCAUgaGCCu -3'
miRNA:   3'- uCGUGAGACCgCAcuGGGGGUGg-CGG- -5'
28455 3' -61.2 NC_005946.1 + 72692 0.7 0.342226
Target:  5'- cAGCAC---GGUGUGcaGCCCCCaguacGCCGCCu -3'
miRNA:   3'- -UCGUGagaCCGCAC--UGGGGG-----UGGCGG- -5'
28455 3' -61.2 NC_005946.1 + 22467 0.74 0.219925
Target:  5'- uGCACggccaucaccCUGGCGUGucuCCCCUGCUGCUg -3'
miRNA:   3'- uCGUGa---------GACCGCACu--GGGGGUGGCGG- -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.