miRNA display CGI


Results 1 - 20 of 32 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
12786 3' -55.3 NC_003387.1 + 1615 0.67 0.602783
Target:  5'- uGGCGAUUucggUCGGCGCGUGcuggcuGAUGg-- -3'
miRNA:   3'- uCCGCUGG----AGCCGCGCACu-----UUACagu -5'
12786 3' -55.3 NC_003387.1 + 2082 0.67 0.646982
Target:  5'- -cGCGGuCCUCGGCG-GUGAAGU-UCGa -3'
miRNA:   3'- ucCGCU-GGAGCCGCgCACUUUAcAGU- -5'
12786 3' -55.3 NC_003387.1 + 2619 0.69 0.52566
Target:  5'- cAGGCGcucgcggGCCUCGGCGauCGUGucGUGcUCGg -3'
miRNA:   3'- -UCCGC-------UGGAGCCGC--GCACuuUAC-AGU- -5'
12786 3' -55.3 NC_003387.1 + 3160 0.67 0.646982
Target:  5'- cGGGCGcACCUCGGCGaggcCGUaaucGggGUGa-- -3'
miRNA:   3'- -UCCGC-UGGAGCCGC----GCA----CuuUACagu -5'
12786 3' -55.3 NC_003387.1 + 4098 0.66 0.690956
Target:  5'- -cGCGACCcgCGGCGcCGUGuacaaGUCGg -3'
miRNA:   3'- ucCGCUGGa-GCCGC-GCACuuua-CAGU- -5'
12786 3' -55.3 NC_003387.1 + 4182 0.7 0.468566
Target:  5'- -cGUGACCUCGGCGCGgUGcuucggccaccgcGUGUCGg -3'
miRNA:   3'- ucCGCUGGAGCCGCGC-ACuu-----------UACAGU- -5'
12786 3' -55.3 NC_003387.1 + 10632 0.66 0.690956
Target:  5'- -cGCGACCgCGGCG-GUGAAggGUa- -3'
miRNA:   3'- ucCGCUGGaGCCGCgCACUUuaCAgu -5'
12786 3' -55.3 NC_003387.1 + 11588 0.67 0.658023
Target:  5'- -aGCGGCCgUCGGCGCGcugccacuUGAuccgGUCGu -3'
miRNA:   3'- ucCGCUGG-AGCCGCGC--------ACUuua-CAGU- -5'
12786 3' -55.3 NC_003387.1 + 11672 0.78 0.149125
Target:  5'- -aGCGGCCUCGGCgaucGCGUG-GGUGUCAa -3'
miRNA:   3'- ucCGCUGGAGCCG----CGCACuUUACAGU- -5'
12786 3' -55.3 NC_003387.1 + 13308 0.66 0.712644
Target:  5'- cGGCGGCCUcgaCGGCaGCGaccUGGGcaagacguucGUGUCGg -3'
miRNA:   3'- uCCGCUGGA---GCCG-CGC---ACUU----------UACAGU- -5'
12786 3' -55.3 NC_003387.1 + 17186 0.67 0.646982
Target:  5'- uGGGCGGCgaCGGCGCGa-AAGUGg-- -3'
miRNA:   3'- -UCCGCUGgaGCCGCGCacUUUACagu -5'
12786 3' -55.3 NC_003387.1 + 19263 0.7 0.434903
Target:  5'- cGGCGACUUCGGCcgccuuGCGcGAGGUGg-- -3'
miRNA:   3'- uCCGCUGGAGCCG------CGCaCUUUACagu -5'
12786 3' -55.3 NC_003387.1 + 20056 0.67 0.658023
Target:  5'- cGGCGAgguucagCUCGGCguGCGUGAGcguuAUGUCc -3'
miRNA:   3'- uCCGCUg------GAGCCG--CGCACUU----UACAGu -5'
12786 3' -55.3 NC_003387.1 + 20840 0.67 0.646982
Target:  5'- -cGCGACgUCGGCGaCG-GGAuagGUCAg -3'
miRNA:   3'- ucCGCUGgAGCCGC-GCaCUUua-CAGU- -5'
12786 3' -55.3 NC_003387.1 + 22583 0.78 0.153308
Target:  5'- aGGGUGGCCUCGGUGCGgccAcgGUCGa -3'
miRNA:   3'- -UCCGCUGGAGCCGCGCacuUuaCAGU- -5'
12786 3' -55.3 NC_003387.1 + 22662 0.7 0.474646
Target:  5'- cGGCGGCCgucagGGCGCGcucgUGGgcGGUGUCGa -3'
miRNA:   3'- uCCGCUGGag---CCGCGC----ACU--UUACAGU- -5'
12786 3' -55.3 NC_003387.1 + 23313 0.66 0.712644
Target:  5'- cGGCGGCCUccuccugcgccCGGCGgGcGAGAUcgagGUCGu -3'
miRNA:   3'- uCCGCUGGA-----------GCCGCgCaCUUUA----CAGU- -5'
12786 3' -55.3 NC_003387.1 + 25300 0.77 0.161995
Target:  5'- aGGGCGACgUCGGCGCGgu-GGUGcCAg -3'
miRNA:   3'- -UCCGCUGgAGCCGCGCacuUUACaGU- -5'
12786 3' -55.3 NC_003387.1 + 25828 0.68 0.558983
Target:  5'- cGGCGGCCUgGGCG-GUGGccUGcUCGg -3'
miRNA:   3'- uCCGCUGGAgCCGCgCACUuuAC-AGU- -5'
12786 3' -55.3 NC_003387.1 + 28076 0.66 0.709409
Target:  5'- uGGCGACCUCgcgcagcagggcgaGGUGCGUcgg--GUCGc -3'
miRNA:   3'- uCCGCUGGAG--------------CCGCGCAcuuuaCAGU- -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.