miRNA display CGI


Results 1 - 20 of 40 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
12781 5' -57.5 NC_003387.1 + 1250 0.68 0.43738
Target:  5'- gUCugGCgUUCGCGGUGucgguuGCggUGCgGCUGc -3'
miRNA:   3'- -AGugCG-AAGCGCCGCu-----CGa-ACG-CGAC- -5'
12781 5' -57.5 NC_003387.1 + 3938 0.7 0.331159
Target:  5'- cCGCgGCgaucaGCGGCGAGCUggcUGCGCc- -3'
miRNA:   3'- aGUG-CGaag--CGCCGCUCGA---ACGCGac -5'
12781 5' -57.5 NC_003387.1 + 4982 0.66 0.549908
Target:  5'- cUCGCGCagaggucggUCGCGauucuGCGGGCcUGCGCc- -3'
miRNA:   3'- -AGUGCGa--------AGCGC-----CGCUCGaACGCGac -5'
12781 5' -57.5 NC_003387.1 + 5619 0.67 0.506619
Target:  5'- aUCAgGCcgcgUUGCGGCGGGUUuuguugaUGCGgUGa -3'
miRNA:   3'- -AGUgCGa---AGCGCCGCUCGA-------ACGCgAC- -5'
12781 5' -57.5 NC_003387.1 + 6364 0.67 0.507659
Target:  5'- gUCGCGCUUggccucggcCGCgGGCGAcGCcUUGCGUg- -3'
miRNA:   3'- -AGUGCGAA---------GCG-CCGCU-CG-AACGCGac -5'
12781 5' -57.5 NC_003387.1 + 6950 0.69 0.40901
Target:  5'- -uGCGCa--GCGGCGGGCagGCGCc- -3'
miRNA:   3'- agUGCGaagCGCCGCUCGaaCGCGac -5'
12781 5' -57.5 NC_003387.1 + 7283 0.75 0.15167
Target:  5'- -gGCGCaggCcCGGCGAGCUUGCGCa- -3'
miRNA:   3'- agUGCGaa-GcGCCGCUCGAACGCGac -5'
12781 5' -57.5 NC_003387.1 + 7967 0.74 0.198764
Target:  5'- --cCGCUUCaCGGCGGGCggGUGCUGc -3'
miRNA:   3'- aguGCGAAGcGCCGCUCGaaCGCGAC- -5'
12781 5' -57.5 NC_003387.1 + 8319 0.67 0.497307
Target:  5'- gCACaGCgucagcCGCGGCGAGCUU-CGCc- -3'
miRNA:   3'- aGUG-CGaa----GCGCCGCUCGAAcGCGac -5'
12781 5' -57.5 NC_003387.1 + 9046 0.66 0.539231
Target:  5'- gUCGCGCagaUCGCgcagaaGGCGGGCcUG-GCUGa -3'
miRNA:   3'- -AGUGCGa--AGCG------CCGCUCGaACgCGAC- -5'
12781 5' -57.5 NC_003387.1 + 12958 0.66 0.556345
Target:  5'- gUUGCGCUUgCGCaccggucGGCGAGCUggucgucgauaaucUcGCGCUGc -3'
miRNA:   3'- -AGUGCGAA-GCG-------CCGCUCGA--------------A-CGCGAC- -5'
12781 5' -57.5 NC_003387.1 + 13048 0.69 0.376523
Target:  5'- gUCGC-CUUCGCGaucGCGAGCUgcugcucccacgccaUGCGCg- -3'
miRNA:   3'- -AGUGcGAAGCGC---CGCUCGA---------------ACGCGac -5'
12781 5' -57.5 NC_003387.1 + 15456 0.68 0.43738
Target:  5'- gCGCGUgaagCGCGGCGAGgauggucUGCGCa- -3'
miRNA:   3'- aGUGCGaa--GCGCCGCUCga-----ACGCGac -5'
12781 5' -57.5 NC_003387.1 + 15786 0.66 0.546697
Target:  5'- gUCGCGCUuuagcgugaucaugUCGCGcUGGGCUgacGCGCa- -3'
miRNA:   3'- -AGUGCGA--------------AGCGCcGCUCGAa--CGCGac -5'
12781 5' -57.5 NC_003387.1 + 15928 0.66 0.571445
Target:  5'- gCACGU--CGCGGUG-GCgUGCGCg- -3'
miRNA:   3'- aGUGCGaaGCGCCGCuCGaACGCGac -5'
12781 5' -57.5 NC_003387.1 + 17761 0.68 0.447085
Target:  5'- cCAgGCc-CGCGuaaaucGCGAGCUUGCGCa- -3'
miRNA:   3'- aGUgCGaaGCGC------CGCUCGAACGCGac -5'
12781 5' -57.5 NC_003387.1 + 18523 0.66 0.560647
Target:  5'- aC-CGCgaCGUGGCGcuguGGCUUGUGCg- -3'
miRNA:   3'- aGuGCGaaGCGCCGC----UCGAACGCGac -5'
12781 5' -57.5 NC_003387.1 + 19652 0.68 0.466847
Target:  5'- gUUACGC-UCGCGGCGcuuGGC--GCGCa- -3'
miRNA:   3'- -AGUGCGaAGCGCCGC---UCGaaCGCGac -5'
12781 5' -57.5 NC_003387.1 + 19893 0.66 0.539232
Target:  5'- cCcCGCccCGCGGUgcGGGC-UGCGCUGa -3'
miRNA:   3'- aGuGCGaaGCGCCG--CUCGaACGCGAC- -5'
12781 5' -57.5 NC_003387.1 + 19949 0.7 0.331159
Target:  5'- -gGCGgUaCGCGGCGGGUggUUGCGCa- -3'
miRNA:   3'- agUGCgAaGCGCCGCUCG--AACGCGac -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.