miRNA display CGI


Results 1 - 20 of 28 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
12029 3' -54.9 NC_003278.1 + 32130 1.11 0.000492
Target:  5'- gGCGGAAACCACUCACGACUGCGGCGAg -3'
miRNA:   3'- -CGCCUUUGGUGAGUGCUGACGCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 27098 0.73 0.26215
Target:  5'- aGCGGAu-CCGCaUC-CGGCUGUGGCa- -3'
miRNA:   3'- -CGCCUuuGGUG-AGuGCUGACGCCGcu -5'
12029 3' -54.9 NC_003278.1 + 33896 0.72 0.298504
Target:  5'- cGCGGAAGCCGCUgGCGGCaaucugGuuGCGu -3'
miRNA:   3'- -CGCCUUUGGUGAgUGCUGa-----CgcCGCu -5'
12029 3' -54.9 NC_003278.1 + 16827 0.71 0.359256
Target:  5'- aGCGGAAacucaccggacuccgGCCAgUCGCGcaguugGCGGCGGu -3'
miRNA:   3'- -CGCCUU---------------UGGUgAGUGCuga---CGCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 35503 0.7 0.38256
Target:  5'- gGCGGgcGCUGCUgGUGGCuuucUGCGGCGAu -3'
miRNA:   3'- -CGCCuuUGGUGAgUGCUG----ACGCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 26151 0.69 0.420319
Target:  5'- aGCGGAcuauuGCCGgUUACGAaggugGUGGCGGg -3'
miRNA:   3'- -CGCCUu----UGGUgAGUGCUga---CGCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 21122 0.69 0.430106
Target:  5'- cGCGGcGccggccagcACCGC-CACGACgGCGGCa- -3'
miRNA:   3'- -CGCCuU---------UGGUGaGUGCUGaCGCCGcu -5'
12029 3' -54.9 NC_003278.1 + 5198 0.69 0.460246
Target:  5'- cCGGggGCCGCUgCuguUGGCUGUGGUc- -3'
miRNA:   3'- cGCCuuUGGUGA-Gu--GCUGACGCCGcu -5'
12029 3' -54.9 NC_003278.1 + 7424 0.69 0.460246
Target:  5'- aGCGGuagcgcucGGCCACUU-CGGCgGCGGUGGc -3'
miRNA:   3'- -CGCCu-------UUGGUGAGuGCUGaCGCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 6867 0.69 0.47054
Target:  5'- cGCGcGAu-CCaACUgCACGACaagUGCGGCGGg -3'
miRNA:   3'- -CGC-CUuuGG-UGA-GUGCUG---ACGCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 23246 0.68 0.502095
Target:  5'- gGCGGuu-CCACUCgGCG-CggGCGGCGc -3'
miRNA:   3'- -CGCCuuuGGUGAG-UGCuGa-CGCCGCu -5'
12029 3' -54.9 NC_003278.1 + 6291 0.68 0.51282
Target:  5'- cGCGuGAccGCCGCUCAagaGGCgGCGGCc- -3'
miRNA:   3'- -CGC-CUu-UGGUGAGUg--CUGaCGCCGcu -5'
12029 3' -54.9 NC_003278.1 + 16945 0.68 0.51282
Target:  5'- -aGGcuGCCGCgcgCGCGGCgaaGgGGCGAg -3'
miRNA:   3'- cgCCuuUGGUGa--GUGCUGa--CgCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 33203 0.67 0.534542
Target:  5'- uGCGGuu-CCGC---CGGCUGCGGcCGAg -3'
miRNA:   3'- -CGCCuuuGGUGaguGCUGACGCC-GCU- -5'
12029 3' -54.9 NC_003278.1 + 2414 0.67 0.544423
Target:  5'- gGCGGAcuggacuguaacuGGCUGCUgGCGGCgGUGGCu- -3'
miRNA:   3'- -CGCCU-------------UUGGUGAgUGCUGaCGCCGcu -5'
12029 3' -54.9 NC_003278.1 + 1659 0.67 0.545525
Target:  5'- cGCGacGACCACUCGcCGGCcUGCGGg-- -3'
miRNA:   3'- -CGCcuUUGGUGAGU-GCUG-ACGCCgcu -5'
12029 3' -54.9 NC_003278.1 + 3085 0.67 0.55658
Target:  5'- uCGGAggacuacaAGCCGUUCGCG-CUGCGGCc- -3'
miRNA:   3'- cGCCU--------UUGGUGAGUGCuGACGCCGcu -5'
12029 3' -54.9 NC_003278.1 + 17540 0.67 0.578872
Target:  5'- cCGGccAGAUCAC-CAUGGCUucgcgcGCGGCGAa -3'
miRNA:   3'- cGCC--UUUGGUGaGUGCUGA------CGCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 11967 0.67 0.578872
Target:  5'- gGUGGggGcguuCCAUUCGCGGucggcgccggcCcGCGGCGAu -3'
miRNA:   3'- -CGCCuuU----GGUGAGUGCU-----------GaCGCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 9815 0.67 0.590092
Target:  5'- gGCGGGAcaGCCACUgAUGGuaaGCGGCc- -3'
miRNA:   3'- -CGCCUU--UGGUGAgUGCUga-CGCCGcu -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.