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 + 32238 0.77 0.145423
Target:  5'- cGCGACgagcugGCCGaccgccUGGCCGUCGCCg -3'
miRNA:   3'- uUGCUGaa----CGGCaac---ACCGGCAGCGG- -5'
12783 3' -56 NC_003387.1 + 47459 0.66 0.645542
Target:  5'- uACGGCgagucgGCUGUUGaguucGCCGUCgGCCa -3'
miRNA:   3'- uUGCUGaa----CGGCAACac---CGGCAG-CGG- -5'
12783 3' -56 NC_003387.1 + 12907 0.67 0.568715
Target:  5'- cGACGGCgugggggUGCCuaGUgGUGGCuCGUCGgCg -3'
miRNA:   3'- -UUGCUGa------ACGG--CAaCACCG-GCAGCgG- -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 + 51964 0.68 0.515197
Target:  5'- -cCGACgucgcUGCCGcgGUGGCCGacCGCa -3'
miRNA:   3'- uuGCUGa----ACGGCaaCACCGGCa-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 + 35358 0.66 0.667527
Target:  5'- aGACaGGCUcGCCGcaccUGaucGCCGUCGCCu -3'
miRNA:   3'- -UUG-CUGAaCGGCa---ACac-CGGCAGCGG- -5'
12783 3' -56 NC_003387.1 + 2050 0.66 0.634526
Target:  5'- -cCGAgCUgGCCGcgGUGGCgG-CGCCa -3'
miRNA:   3'- uuGCU-GAaCGGCaaCACCGgCaGCGG- -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 + 1944 0.69 0.484073
Target:  5'- cGCGACgcagGCgGUUGgGGCUGggacCGCCg -3'
miRNA:   3'- uUGCUGaa--CGgCAACaCCGGCa---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 + 26288 0.66 0.667527
Target:  5'- cAACGuCgcaaUGCuCGgcGUGGCUGUCGUg -3'
miRNA:   3'- -UUGCuGa---ACG-GCaaCACCGGCAGCGg -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 + 41912 0.67 0.612497
Target:  5'- gGACGccaGCUcgUGCCG-UGUGccGCCGaCGCCg -3'
miRNA:   3'- -UUGC---UGA--ACGGCaACAC--CGGCaGCGG- -5'
12783 3' -56 NC_003387.1 + 7538 0.66 0.645542
Target:  5'- gAGCGGCacugcUGCCGcccUGGCCGaUCGCg -3'
miRNA:   3'- -UUGCUGa----ACGGCaacACCGGC-AGCGg -5'
12783 3' -56 NC_003387.1 + 2555 0.67 0.612497
Target:  5'- gGAUGaACUcGCCG--GUGGCguUGUCGCCg -3'
miRNA:   3'- -UUGC-UGAaCGGCaaCACCG--GCAGCGG- -5'
12783 3' -56 NC_003387.1 + 17016 0.67 0.612497
Target:  5'- cAGCGGCagGCCGUcGUcGCCGUacgGCCc -3'
miRNA:   3'- -UUGCUGaaCGGCAaCAcCGGCAg--CGG- -5'
12783 3' -56 NC_003387.1 + 18967 0.67 0.612497
Target:  5'- cGCGGCgccGCCGUUGcccuuGCCGgggUGCCg -3'
miRNA:   3'- uUGCUGaa-CGGCAACac---CGGCa--GCGG- -5'
12783 3' -56 NC_003387.1 + 29592 0.67 0.612497
Target:  5'- cGAUGACaccgUUGCCGgUGagGGUCG-CGCCg -3'
miRNA:   3'- -UUGCUG----AACGGCaACa-CCGGCaGCGG- -5'
12783 3' -56 NC_003387.1 + 206 0.66 0.656546
Target:  5'- cGGCGGCUUGUCGcucUUGUcGCgGUUGCa -3'
miRNA:   3'- -UUGCUGAACGGC---AACAcCGgCAGCGg -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.