miRNA display CGI


Results 1 - 20 of 21 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
9885 3' -54.2 NC_002641.1 + 137894 0.66 0.958366
Target:  5'- cGgGACGCCGUCAUGAcGCUCGauuaauGUAg -3'
miRNA:   3'- -CgUUGUGGCGGUGCUaCGAGUgu----CGU- -5'
9885 3' -54.2 NC_002641.1 + 5573 0.66 0.954509
Target:  5'- -gGACGCCGCCGCGGaccGgUCAauguGGCGg -3'
miRNA:   3'- cgUUGUGGCGGUGCUa--CgAGUg---UCGU- -5'
9885 3' -54.2 NC_002641.1 + 118149 0.66 0.954509
Target:  5'- -gGACGCCGCCGCGGaccGgUCAauguGGCGg -3'
miRNA:   3'- cgUUGUGGCGGUGCUa--CgAGUg---UCGU- -5'
9885 3' -54.2 NC_002641.1 + 47252 0.66 0.954509
Target:  5'- ---uCGCCGCCACagGGUGCcuaUC-CAGCAu -3'
miRNA:   3'- cguuGUGGCGGUG--CUACG---AGuGUCGU- -5'
9885 3' -54.2 NC_002641.1 + 3902 0.66 0.954509
Target:  5'- cCAGCucguCCGCCGCGAaagUGCcggUCcCGGCGa -3'
miRNA:   3'- cGUUGu---GGCGGUGCU---ACG---AGuGUCGU- -5'
9885 3' -54.2 NC_002641.1 + 119821 0.66 0.954509
Target:  5'- cCAGCucguCCGCCGCGAaagUGCcggUCcCGGCGa -3'
miRNA:   3'- cGUUGu---GGCGGUGCU---ACG---AGuGUCGU- -5'
9885 3' -54.2 NC_002641.1 + 68391 0.66 0.946088
Target:  5'- -gAGCGCCGCUcC-AUGCUCACAuaccuGCAu -3'
miRNA:   3'- cgUUGUGGCGGuGcUACGAGUGU-----CGU- -5'
9885 3' -54.2 NC_002641.1 + 157427 0.66 0.936206
Target:  5'- cCAGcCACCagGCCGCGAcGCUgauacacCGCAGCAu -3'
miRNA:   3'- cGUU-GUGG--CGGUGCUaCGA-------GUGUCGU- -5'
9885 3' -54.2 NC_002641.1 + 125046 0.66 0.936206
Target:  5'- cCAGcCACCagGCCGCGAcGCUgauacacCGCAGCAu -3'
miRNA:   3'- cGUU-GUGG--CGGUGCUaCGA-------GUGUCGU- -5'
9885 3' -54.2 NC_002641.1 + 125279 0.67 0.925788
Target:  5'- cGCAGCucuGCCGCCguaggacucggcgGCGGcccuuccuUGC-CGCAGCAg -3'
miRNA:   3'- -CGUUG---UGGCGG-------------UGCU--------ACGaGUGUCGU- -5'
9885 3' -54.2 NC_002641.1 + 157193 0.67 0.920778
Target:  5'- cGCAGCucuGCCGCCguaggacucgGCGGggcccuuccuUGC-CGCAGCAg -3'
miRNA:   3'- -CGUUG---UGGCGG----------UGCU----------ACGaGUGUCGU- -5'
9885 3' -54.2 NC_002641.1 + 64076 0.68 0.889345
Target:  5'- gGCGACACCGacuCGGUGUUCAUuaaauucacgGGCGu -3'
miRNA:   3'- -CGUUGUGGCgguGCUACGAGUG----------UCGU- -5'
9885 3' -54.2 NC_002641.1 + 37842 0.68 0.881631
Target:  5'- cGCAAUGCCGUgACGGauaugggaaacacUGCUCAgAGUu -3'
miRNA:   3'- -CGUUGUGGCGgUGCU-------------ACGAGUgUCGu -5'
9885 3' -54.2 NC_002641.1 + 38108 0.69 0.852099
Target:  5'- cGCAuuGCCGCCA-GAUGaUCAgAGCAu -3'
miRNA:   3'- -CGUugUGGCGGUgCUACgAGUgUCGU- -5'
9885 3' -54.2 NC_002641.1 + 98173 0.71 0.7338
Target:  5'- aGCcAUACCGUCGCGGUGCacauUgGCGGCu -3'
miRNA:   3'- -CGuUGUGGCGGUGCUACG----AgUGUCGu -5'
9885 3' -54.2 NC_002641.1 + 141314 0.73 0.652036
Target:  5'- cGC-ACGCCGCU-CGuUGUUCACGGCAc -3'
miRNA:   3'- -CGuUGUGGCGGuGCuACGAGUGUCGU- -5'
9885 3' -54.2 NC_002641.1 + 153735 0.75 0.53863
Target:  5'- aGCGACACCG-CGCG-UGC-CGCGGCGg -3'
miRNA:   3'- -CGUUGUGGCgGUGCuACGaGUGUCGU- -5'
9885 3' -54.2 NC_002641.1 + 157572 0.77 0.414731
Target:  5'- cCAGCGCCGCgCACGGUGCUCcucGCuucuGGCAg -3'
miRNA:   3'- cGUUGUGGCG-GUGCUACGAG---UG----UCGU- -5'
9885 3' -54.2 NC_002641.1 + 124900 0.77 0.414731
Target:  5'- cCAGCGCCGCgCACGGUGCUCcucGCuucuGGCAg -3'
miRNA:   3'- cGUUGUGGCG-GUGCUACGAG---UG----UCGU- -5'
9885 3' -54.2 NC_002641.1 + 120105 1.11 0.003033
Target:  5'- cGCAACACCGCCACGAUGCUCACAGCAu -3'
miRNA:   3'- -CGUUGUGGCGGUGCUACGAGUGUCGU- -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.