miRNA display CGI


Results 1 - 20 of 36 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
27420 3' -68.4 NC_005869.1 + 33862 0.66 0.137432
Target:  5'- cUCCgCCGcGaCCUGCGacuuugaCCCCG-CCCCu -3'
miRNA:   3'- cAGG-GGC-C-GGACGCgg-----GGGGCaGGGG- -5'
27420 3' -68.4 NC_005869.1 + 15207 0.66 0.137432
Target:  5'- cUCCauguaCGGgg-GCGCCCgccgCCUGUCCCCg -3'
miRNA:   3'- cAGGg----GCCggaCGCGGG----GGGCAGGGG- -5'
27420 3' -68.4 NC_005869.1 + 17280 0.66 0.136353
Target:  5'- -gCCCCGGCUgaggaGCGCCUCggugggcguccagaCCGcUCCCg -3'
miRNA:   3'- caGGGGCCGGa----CGCGGGG--------------GGC-AGGGg -5'
27420 3' -68.4 NC_005869.1 + 23168 0.66 0.130382
Target:  5'- -cUCCCGGUccagCUGCaUCUCCCG-CCCCg -3'
miRNA:   3'- caGGGGCCG----GACGcGGGGGGCaGGGG- -5'
27420 3' -68.4 NC_005869.1 + 17546 0.66 0.130039
Target:  5'- -aCCCCGGUggcgguggCaGCGCCgCCCGcccgcagcggcggUCCCCc -3'
miRNA:   3'- caGGGGCCG--------GaCGCGGgGGGC-------------AGGGG- -5'
27420 3' -68.4 NC_005869.1 + 31939 0.66 0.126984
Target:  5'- -cCCCCcGCCU-C-CUCCCCGcUCCCCu -3'
miRNA:   3'- caGGGGcCGGAcGcGGGGGGC-AGGGG- -5'
27420 3' -68.4 NC_005869.1 + 16436 0.66 0.123014
Target:  5'- uGUCCCCucgcacGGCCgucaagcgccggGCGCCCgCCGacgagCCCa -3'
miRNA:   3'- -CAGGGG------CCGGa-----------CGCGGGgGGCa----GGGg -5'
27420 3' -68.4 NC_005869.1 + 9740 0.66 0.120432
Target:  5'- aGUCCUCcuCCUGCuCCuCCUCGUCCCg -3'
miRNA:   3'- -CAGGGGccGGACGcGG-GGGGCAGGGg -5'
27420 3' -68.4 NC_005869.1 + 9293 0.66 0.117275
Target:  5'- gGUCCUgguUGGCgCagGCcgGCUCCUCGUCCCCc -3'
miRNA:   3'- -CAGGG---GCCG-Ga-CG--CGGGGGGCAGGGG- -5'
27420 3' -68.4 NC_005869.1 + 17105 0.66 0.117275
Target:  5'- aGUCCU--GCagGCGCCCCCCG-CCCg -3'
miRNA:   3'- -CAGGGgcCGgaCGCGGGGGGCaGGGg -5'
27420 3' -68.4 NC_005869.1 + 32010 0.67 0.114196
Target:  5'- -cCUUCGaGCCUGCGCCCgCUCGcuuccaUCCCa -3'
miRNA:   3'- caGGGGC-CGGACGCGGG-GGGC------AGGGg -5'
27420 3' -68.4 NC_005869.1 + 31410 0.67 0.114196
Target:  5'- cUCCCCcGCCgcUGCGCCCCgauggccuCCG-CCgCCa -3'
miRNA:   3'- cAGGGGcCGG--ACGCGGGG--------GGCaGG-GG- -5'
27420 3' -68.4 NC_005869.1 + 17013 0.67 0.108262
Target:  5'- -aUCCCGGCCagGCaGCCCCgCaCGguaUCCCUg -3'
miRNA:   3'- caGGGGCCGGa-CG-CGGGG-G-GC---AGGGG- -5'
27420 3' -68.4 NC_005869.1 + 25653 0.67 0.107685
Target:  5'- -gCCCUGGCCaaccucuuccagcUGCaccuccugcgcccGCCCCCCGaCCUCc -3'
miRNA:   3'- caGGGGCCGG-------------ACG-------------CGGGGGGCaGGGG- -5'
27420 3' -68.4 NC_005869.1 + 29077 0.67 0.102619
Target:  5'- -aCCCCGGCUgGCaCCUgCCGcUCCCUc -3'
miRNA:   3'- caGGGGCCGGaCGcGGGgGGC-AGGGG- -5'
27420 3' -68.4 NC_005869.1 + 25812 0.67 0.102344
Target:  5'- -cCCCCgcccgagGGCCcGcCGCCCCgCC-UCCCCu -3'
miRNA:   3'- caGGGG-------CCGGaC-GCGGGG-GGcAGGGG- -5'
27420 3' -68.4 NC_005869.1 + 28953 0.67 0.099902
Target:  5'- -gCCCCucaaGGCCUuCGCCUCCC-UCuCCCa -3'
miRNA:   3'- caGGGG----CCGGAcGCGGGGGGcAG-GGG- -5'
27420 3' -68.4 NC_005869.1 + 21081 0.67 0.097253
Target:  5'- cGUCCCagGGCC-GCuccucCCCCUCGUCCUg -3'
miRNA:   3'- -CAGGGg-CCGGaCGc----GGGGGGCAGGGg -5'
27420 3' -68.4 NC_005869.1 + 7363 0.68 0.094671
Target:  5'- gGUCCUCgggGGCCaUGaCGCCCUCC-UCCCa -3'
miRNA:   3'- -CAGGGG---CCGG-AC-GCGGGGGGcAGGGg -5'
27420 3' -68.4 NC_005869.1 + 21097 0.68 0.092154
Target:  5'- -gCCCUGGgCU-CGCCCUUCGaCCCCu -3'
miRNA:   3'- caGGGGCCgGAcGCGGGGGGCaGGGG- -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.