miRNA display CGI


Results 1 - 20 of 47 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
12783 3' -56 NC_003387.1 + 47916 1.1 0.000635
Target:  5'- gAACGACUUGCCGUUGUGGCCGUCGCCg -3'
miRNA:   3'- -UUGCUGAACGGCAACACCGGCAGCGG- -5'
12783 3' -56 NC_003387.1 + 32238 0.77 0.145423
Target:  5'- cGCGACgagcugGCCGaccgccUGGCCGUCGCCg -3'
miRNA:   3'- uUGCUGaa----CGGCaac---ACCGGCAGCGG- -5'
12783 3' -56 NC_003387.1 + 29629 0.75 0.212037
Target:  5'- cAGCGGCUUGCCGUacaggaaUGU-GCUGUCgGCCu -3'
miRNA:   3'- -UUGCUGAACGGCA-------ACAcCGGCAG-CGG- -5'
12783 3' -56 NC_003387.1 + 21683 0.74 0.248795
Target:  5'- -uCGGCgccggUGCCGUgcUGGCCGcCGCCc -3'
miRNA:   3'- uuGCUGa----ACGGCAacACCGGCaGCGG- -5'
12783 3' -56 NC_003387.1 + 39452 0.73 0.29729
Target:  5'- -uCGACUUGCCcuugGUGGCC-UUGCCc -3'
miRNA:   3'- uuGCUGAACGGcaa-CACCGGcAGCGG- -5'
12783 3' -56 NC_003387.1 + 27403 0.7 0.396742
Target:  5'- -cCGGgaUGCCGUUGgGGCCGUagcacacuggcUGCCa -3'
miRNA:   3'- uuGCUgaACGGCAACaCCGGCA-----------GCGG- -5'
12783 3' -56 NC_003387.1 + 44606 0.7 0.415274
Target:  5'- gAGCGACgccgucggGCCGUggcgcgagcgUGUGGCCcUgGCCg -3'
miRNA:   3'- -UUGCUGaa------CGGCA----------ACACCGGcAgCGG- -5'
12783 3' -56 NC_003387.1 + 17187 0.69 0.463833
Target:  5'- gGGCGGCgacgGCgCGaaaGUGGCCGagGCCg -3'
miRNA:   3'- -UUGCUGaa--CG-GCaa-CACCGGCagCGG- -5'
12783 3' -56 NC_003387.1 + 30429 0.69 0.484073
Target:  5'- aGGCGGCUUGCCGgguuUGuUGGCgcccugGUCuGCCa -3'
miRNA:   3'- -UUGCUGAACGGCa---AC-ACCGg-----CAG-CGG- -5'
12783 3' -56 NC_003387.1 + 1944 0.69 0.484073
Target:  5'- cGCGACgcagGCgGUUGgGGCUGggacCGCCg -3'
miRNA:   3'- uUGCUGaa--CGgCAACaCCGGCa---GCGG- -5'
12783 3' -56 NC_003387.1 + 30218 0.69 0.494351
Target:  5'- cGACGucgaGCgcGCCGccGaGGCCGUCGCCc -3'
miRNA:   3'- -UUGC----UGaaCGGCaaCaCCGGCAGCGG- -5'
12783 3' -56 NC_003387.1 + 51964 0.68 0.515197
Target:  5'- -cCGACgucgcUGCCGcgGUGGCCGacCGCa -3'
miRNA:   3'- uuGCUGa----ACGGCaaCACCGGCa-GCGg -5'
12783 3' -56 NC_003387.1 + 15191 0.68 0.551404
Target:  5'- cGCGGCUUgaacGCCGUUGUaguagcggguaauccGGUCGUC-CCu -3'
miRNA:   3'- uUGCUGAA----CGGCAACA---------------CCGGCAGcGG- -5'
12783 3' -56 NC_003387.1 + 31934 0.68 0.553559
Target:  5'- aAACcGCUUGCCGUUaccaaagccgagGGCCGacgCGCCu -3'
miRNA:   3'- -UUGcUGAACGGCAAca----------CCGGCa--GCGG- -5'
12783 3' -56 NC_003387.1 + 13414 0.68 0.557878
Target:  5'- cACGccCUcGCCGUUGUcGGCCGggggcUUGCCg -3'
miRNA:   3'- uUGCu-GAaCGGCAACA-CCGGC-----AGCGG- -5'
12783 3' -56 NC_003387.1 + 33414 0.68 0.557878
Target:  5'- cGCGAg--GCCGUUGUgcGGCUGU-GCCu -3'
miRNA:   3'- uUGCUgaaCGGCAACA--CCGGCAgCGG- -5'
12783 3' -56 NC_003387.1 + 41401 0.67 0.568715
Target:  5'- gAACGACUggacaaucucGCCGagcUUGccGCUGUCGCCg -3'
miRNA:   3'- -UUGCUGAa---------CGGC---AACacCGGCAGCGG- -5'
12783 3' -56 NC_003387.1 + 35069 0.67 0.568715
Target:  5'- cACGcCUUGCCcUUGUcggucgGGCCGaggcUCGCCu -3'
miRNA:   3'- uUGCuGAACGGcAACA------CCGGC----AGCGG- -5'
12783 3' -56 NC_003387.1 + 18310 0.67 0.568715
Target:  5'- cGCGGCggugGCgcccggcaaCGgcGUGGCCGUCGUg -3'
miRNA:   3'- uUGCUGaa--CG---------GCaaCACCGGCAGCGg -5'
12783 3' -56 NC_003387.1 + 12907 0.67 0.568715
Target:  5'- cGACGGCgugggggUGCCuaGUgGUGGCuCGUCGgCg -3'
miRNA:   3'- -UUGCUGa------ACGG--CAaCACCG-GCAGCgG- -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.