miRNA display CGI


Results 1 - 20 of 22 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
13583 3' -55.3 NC_003444.1 + 15507 0.66 0.605963
Target:  5'- ---uGACGUACC-GuCGUCAGCGuUACCg -3'
miRNA:   3'- ccauUUGCGUGGaC-GCGGUCGC-GUGG- -5'
13583 3' -55.3 NC_003444.1 + 13037 0.66 0.583459
Target:  5'- cGGU--GCGCAUCgGUGCCGGUauugaacgacugGCGCg -3'
miRNA:   3'- -CCAuuUGCGUGGaCGCGGUCG------------CGUGg -5'
13583 3' -55.3 NC_003444.1 + 8178 0.66 0.583459
Target:  5'- cGGUGAGaaccggaGCGCCcGUuCCGGCGguCCc -3'
miRNA:   3'- -CCAUUUg------CGUGGaCGcGGUCGCguGG- -5'
13583 3' -55.3 NC_003444.1 + 16803 0.66 0.572267
Target:  5'- uGGUGGAgGCAUCcgGgGCCagucuggagaaGGCGCAgCa -3'
miRNA:   3'- -CCAUUUgCGUGGa-CgCGG-----------UCGCGUgG- -5'
13583 3' -55.3 NC_003444.1 + 32915 0.66 0.572267
Target:  5'- cGUAAuCGUuaaaccaccugaGCCUGuCGCCGGUGCGUCa -3'
miRNA:   3'- cCAUUuGCG------------UGGAC-GCGGUCGCGUGG- -5'
13583 3' -55.3 NC_003444.1 + 8380 0.66 0.571151
Target:  5'- uGGuUAAACugguCACCUGCGUucaccaguucugaCAGUGUGCCg -3'
miRNA:   3'- -CC-AUUUGc---GUGGACGCG-------------GUCGCGUGG- -5'
13583 3' -55.3 NC_003444.1 + 8857 0.66 0.568919
Target:  5'- -uUAAGCaGUACCUGguuguggagcgugaUGCCAGCGUuCCg -3'
miRNA:   3'- ccAUUUG-CGUGGAC--------------GCGGUCGCGuGG- -5'
13583 3' -55.3 NC_003444.1 + 8060 0.67 0.550046
Target:  5'- cGGUGGGgGCGaagUGCuGCCAGCGgGCg -3'
miRNA:   3'- -CCAUUUgCGUgg-ACG-CGGUCGCgUGg -5'
13583 3' -55.3 NC_003444.1 + 15931 0.67 0.506484
Target:  5'- cGGUGAugGCAgCCcguauuuccggUGUGuCCGGCGuCACg -3'
miRNA:   3'- -CCAUUugCGU-GG-----------ACGC-GGUCGC-GUGg -5'
13583 3' -55.3 NC_003444.1 + 14478 0.68 0.495819
Target:  5'- aGGUGAAag-ACCUGUGCgacucCGGCGgCACCa -3'
miRNA:   3'- -CCAUUUgcgUGGACGCG-----GUCGC-GUGG- -5'
13583 3' -55.3 NC_003444.1 + 21144 0.68 0.495819
Target:  5'- --cGAGCGUcuuaaGCCUGuUGCCAGUGCAa- -3'
miRNA:   3'- ccaUUUGCG-----UGGAC-GCGGUCGCGUgg -5'
13583 3' -55.3 NC_003444.1 + 7783 0.68 0.474802
Target:  5'- cGGUcuGGCGauaaGCCUcgaccauacGCGCCAGCugacuucccGCACCa -3'
miRNA:   3'- -CCAu-UUGCg---UGGA---------CGCGGUCG---------CGUGG- -5'
13583 3' -55.3 NC_003444.1 + 29848 0.68 0.464462
Target:  5'- --aAGGCGUucugACCagucaUGCGCCAGCGCguugucuuccGCCg -3'
miRNA:   3'- ccaUUUGCG----UGG-----ACGCGGUCGCG----------UGG- -5'
13583 3' -55.3 NC_003444.1 + 2402 0.68 0.45424
Target:  5'- uGGUGGGCGCACUgGCuaugGCCAgaagggggacGCGUGCUg -3'
miRNA:   3'- -CCAUUUGCGUGGaCG----CGGU----------CGCGUGG- -5'
13583 3' -55.3 NC_003444.1 + 13887 0.69 0.443139
Target:  5'- ---cAGCGUACCguuacccUGuCGCCAGCccuGCACCa -3'
miRNA:   3'- ccauUUGCGUGG-------AC-GCGGUCG---CGUGG- -5'
13583 3' -55.3 NC_003444.1 + 30236 0.69 0.424331
Target:  5'- ---uGGCGaACCUGCGCCAGaaaCGCCu -3'
miRNA:   3'- ccauUUGCgUGGACGCGGUCgc-GUGG- -5'
13583 3' -55.3 NC_003444.1 + 5229 0.69 0.423354
Target:  5'- uGGU-GugGCACCUGCuUCAGUGUugaauguACCg -3'
miRNA:   3'- -CCAuUugCGUGGACGcGGUCGCG-------UGG- -5'
13583 3' -55.3 NC_003444.1 + 16287 0.69 0.405057
Target:  5'- cGGcggGAACGCAgacCCUuCGCCAGCGuCAgCa -3'
miRNA:   3'- -CCa--UUUGCGU---GGAcGCGGUCGC-GUgG- -5'
13583 3' -55.3 NC_003444.1 + 15289 0.69 0.405057
Target:  5'- gGGUAuAUGCGCUgggaagGUGUCAGCGaugGCCu -3'
miRNA:   3'- -CCAUuUGCGUGGa-----CGCGGUCGCg--UGG- -5'
13583 3' -55.3 NC_003444.1 + 24879 0.7 0.386345
Target:  5'- uGGUG--UGCAaCCUuCGCCAG-GCACCg -3'
miRNA:   3'- -CCAUuuGCGU-GGAcGCGGUCgCGUGG- -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.