miRNA display CGI


Results 1 - 20 of 24 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
12485 3' -56.1 NC_003324.1 + 47847 0.65 0.680307
Target:  5'- aGGCGGcGCUGCCGCugaaaccguaccugACCGGcGuCAGg- -3'
miRNA:   3'- -CCGUUaCGACGGUG--------------UGGCCuC-GUCac -5'
12485 3' -56.1 NC_003324.1 + 45217 0.66 0.672643
Target:  5'- aGGCAcaucguUGUUGaUACGCCGGcAGCGGUc -3'
miRNA:   3'- -CCGUu-----ACGACgGUGUGGCC-UCGUCAc -5'
12485 3' -56.1 NC_003324.1 + 25612 0.66 0.672643
Target:  5'- cGGCc--GCUGCUGCGCCGGcacGGCuGcUGa -3'
miRNA:   3'- -CCGuuaCGACGGUGUGGCC---UCGuC-AC- -5'
12485 3' -56.1 NC_003324.1 + 44932 0.66 0.661663
Target:  5'- gGGCAAagGCUGCC-CACgGcAGCAGc- -3'
miRNA:   3'- -CCGUUa-CGACGGuGUGgCcUCGUCac -5'
12485 3' -56.1 NC_003324.1 + 42289 0.66 0.660563
Target:  5'- cGGCAAcGCugagugcgccgccUGCCACguGCCGGGcGcCGGUGa -3'
miRNA:   3'- -CCGUUaCG-------------ACGGUG--UGGCCU-C-GUCAC- -5'
12485 3' -56.1 NC_003324.1 + 9212 0.66 0.639629
Target:  5'- cGGUGAUGCUGCCgguaaaccccGCACCcGAGaGGUu -3'
miRNA:   3'- -CCGUUACGACGG----------UGUGGcCUCgUCAc -5'
12485 3' -56.1 NC_003324.1 + 4454 0.67 0.61316
Target:  5'- gGGC-AUGCUGCaaacccgauucagGCGCCGGAuGCGGc- -3'
miRNA:   3'- -CCGuUACGACGg------------UGUGGCCU-CGUCac -5'
12485 3' -56.1 NC_003324.1 + 2045 0.67 0.606553
Target:  5'- uGGCAcGUGCUuguggugauaGCCGgACCGGuuaAGCAGg- -3'
miRNA:   3'- -CCGU-UACGA----------CGGUgUGGCC---UCGUCac -5'
12485 3' -56.1 NC_003324.1 + 36268 0.67 0.595559
Target:  5'- uGCccUGCUGCUugacgaugaugGCAUCGGGGCGGg- -3'
miRNA:   3'- cCGuuACGACGG-----------UGUGGCCUCGUCac -5'
12485 3' -56.1 NC_003324.1 + 31322 0.67 0.584596
Target:  5'- cGCAGUGCggccgGCgGCGCUGGcgcuGGCGGg- -3'
miRNA:   3'- cCGUUACGa----CGgUGUGGCC----UCGUCac -5'
12485 3' -56.1 NC_003324.1 + 41250 0.67 0.584596
Target:  5'- uGUAGUGCUGCaggcagucgaGCACCGGcuugauGCGGUu -3'
miRNA:   3'- cCGUUACGACGg---------UGUGGCCu-----CGUCAc -5'
12485 3' -56.1 NC_003324.1 + 20581 0.68 0.55198
Target:  5'- uGGCGagcgggauccgGUGCUGUgGCGCCGucGcCAGUGa -3'
miRNA:   3'- -CCGU-----------UACGACGgUGUGGCcuC-GUCAC- -5'
12485 3' -56.1 NC_003324.1 + 28852 0.68 0.55198
Target:  5'- aGCAcgcGCuUGCga-GCCGGAGCAGUGa -3'
miRNA:   3'- cCGUua-CG-ACGgugUGGCCUCGUCAC- -5'
12485 3' -56.1 NC_003324.1 + 30297 0.68 0.497944
Target:  5'- cGGCGcGUGCUGgcugguaCCACACgCGGAGCcGUu -3'
miRNA:   3'- -CCGU-UACGAC-------GGUGUG-GCCUCGuCAc -5'
12485 3' -56.1 NC_003324.1 + 12870 0.69 0.478413
Target:  5'- uGGUuuUGCUGCCagGCGCCaugaaauaGaGGGCAGUGu -3'
miRNA:   3'- -CCGuuACGACGG--UGUGG--------C-CUCGUCAC- -5'
12485 3' -56.1 NC_003324.1 + 39454 0.69 0.468286
Target:  5'- aGGCAA-GCUGCUuCGCCGGAuGUGGc- -3'
miRNA:   3'- -CCGUUaCGACGGuGUGGCCU-CGUCac -5'
12485 3' -56.1 NC_003324.1 + 8282 0.69 0.458271
Target:  5'- uGGUcgaAGUGCcagGCgCGCGCCGccGGGCAGUGa -3'
miRNA:   3'- -CCG---UUACGa--CG-GUGUGGC--CUCGUCAC- -5'
12485 3' -56.1 NC_003324.1 + 7794 0.7 0.409067
Target:  5'- cGGCcGUGCUGaCCucguucGCGCCGGuguuuccggggucGGCGGUGu -3'
miRNA:   3'- -CCGuUACGAC-GG------UGUGGCC-------------UCGUCAC- -5'
12485 3' -56.1 NC_003324.1 + 55051 0.7 0.391596
Target:  5'- cGGCuggGCUGCCGCGaCGGcGCAGa- -3'
miRNA:   3'- -CCGuuaCGACGGUGUgGCCuCGUCac -5'
12485 3' -56.1 NC_003324.1 + 45434 0.71 0.382598
Target:  5'- cGGCGGUGCaGCCaguuuucgACACUGGcGGCAGg- -3'
miRNA:   3'- -CCGUUACGaCGG--------UGUGGCC-UCGUCac -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.