miRNA display CGI


Results 1 - 20 of 21 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
32772 3' -57.3 NC_007346.1 + 305122 0.66 0.979945
Target:  5'- cACCCGgcuGGUCGCCuccaGCGUgaGCGUUGCa -3'
miRNA:   3'- cUGGGCag-UCGGUGG----UGCA--CGUAGCG- -5'
32772 3' -57.3 NC_007346.1 + 243870 0.66 0.979741
Target:  5'- -cCCCGUCgguuugcGGUCACuCAgGUGCAcgaguugaUCGCa -3'
miRNA:   3'- cuGGGCAG-------UCGGUG-GUgCACGU--------AGCG- -5'
32772 3' -57.3 NC_007346.1 + 128111 0.66 0.97784
Target:  5'- aACUCcaCcGCCGCCAUcUGCAUCGCc -3'
miRNA:   3'- cUGGGcaGuCGGUGGUGcACGUAGCG- -5'
32772 3' -57.3 NC_007346.1 + 39943 0.66 0.97784
Target:  5'- uGAuCCCGagGGCC-CCaaACGUGCAacaCGCg -3'
miRNA:   3'- -CU-GGGCagUCGGuGG--UGCACGUa--GCG- -5'
32772 3' -57.3 NC_007346.1 + 275427 0.66 0.974141
Target:  5'- cGCaCGUCAGCCGCCGuguacaccucugacuUGUGUgugaacagcguGUCGCa -3'
miRNA:   3'- cUGgGCAGUCGGUGGU---------------GCACG-----------UAGCG- -5'
32772 3' -57.3 NC_007346.1 + 189003 0.66 0.970552
Target:  5'- --gCCGUCAccGCCACCAC---CGUCGCc -3'
miRNA:   3'- cugGGCAGU--CGGUGGUGcacGUAGCG- -5'
32772 3' -57.3 NC_007346.1 + 264286 0.67 0.961689
Target:  5'- aGCUCGUCGuUCGCCGCGUGaAUCGa -3'
miRNA:   3'- cUGGGCAGUcGGUGGUGCACgUAGCg -5'
32772 3' -57.3 NC_007346.1 + 272047 0.67 0.958363
Target:  5'- cGCCaCcUCcGCCACCGCcgGUGCGUCGg -3'
miRNA:   3'- cUGG-GcAGuCGGUGGUG--CACGUAGCg -5'
32772 3' -57.3 NC_007346.1 + 306744 0.67 0.958363
Target:  5'- aGCCCGUCGccGCCGCCAaGUcCAcCGCc -3'
miRNA:   3'- cUGGGCAGU--CGGUGGUgCAcGUaGCG- -5'
32772 3' -57.3 NC_007346.1 + 303376 0.67 0.954844
Target:  5'- cAUCCGUUAGgaCACCAaGUGCAaugCGCg -3'
miRNA:   3'- cUGGGCAGUCg-GUGGUgCACGUa--GCG- -5'
32772 3' -57.3 NC_007346.1 + 135438 0.67 0.951128
Target:  5'- aAUCCGUCAGCUucGCCGauaaCAUCGCa -3'
miRNA:   3'- cUGGGCAGUCGG--UGGUgcacGUAGCG- -5'
32772 3' -57.3 NC_007346.1 + 156830 0.68 0.943097
Target:  5'- ---aUGUCAGUCGCCGCaguaUGCGUUGCg -3'
miRNA:   3'- cuggGCAGUCGGUGGUGc---ACGUAGCG- -5'
32772 3' -57.3 NC_007346.1 + 309310 0.68 0.943097
Target:  5'- aGCCCGUCGccGCCACCAaGUcCAcCGCc -3'
miRNA:   3'- cUGGGCAGU--CGGUGGUgCAcGUaGCG- -5'
32772 3' -57.3 NC_007346.1 + 39563 0.68 0.924586
Target:  5'- cGACCCGgCAGCCACU-CGgugGCuGUCGg -3'
miRNA:   3'- -CUGGGCaGUCGGUGGuGCa--CG-UAGCg -5'
32772 3' -57.3 NC_007346.1 + 89894 0.69 0.919443
Target:  5'- aGCaaGcCAGCUGCCGCGgaaGCAUUGCa -3'
miRNA:   3'- cUGggCaGUCGGUGGUGCa--CGUAGCG- -5'
32772 3' -57.3 NC_007346.1 + 165236 0.69 0.901014
Target:  5'- cAUUCGUCauguGGCCAaaaaauucacgcguCUGCGUGCGUCGCg -3'
miRNA:   3'- cUGGGCAG----UCGGU--------------GGUGCACGUAGCG- -5'
32772 3' -57.3 NC_007346.1 + 272891 0.7 0.871022
Target:  5'- cGCaCCGUCAGCgCAuCCAUGgaaaacacgaGCGUCGCg -3'
miRNA:   3'- cUG-GGCAGUCG-GU-GGUGCa---------CGUAGCG- -5'
32772 3' -57.3 NC_007346.1 + 370848 0.71 0.842269
Target:  5'- uGACuuGUCAaCUACCAUGUGCuugaggCGCu -3'
miRNA:   3'- -CUGggCAGUcGGUGGUGCACGua----GCG- -5'
32772 3' -57.3 NC_007346.1 + 315573 0.72 0.759747
Target:  5'- cGACCaUGUCAGCaucauCACCAUGUGCAgauGCa -3'
miRNA:   3'- -CUGG-GCAGUCG-----GUGGUGCACGUag-CG- -5'
32772 3' -57.3 NC_007346.1 + 352679 0.73 0.727279
Target:  5'- cGCCCGauguaaaguUCAuGCCACCgggugccaucgauucACGUGCAUUGCg -3'
miRNA:   3'- cUGGGC---------AGU-CGGUGG---------------UGCACGUAGCG- -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.