miRNA display CGI


Results 1 - 16 of 16 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
13336 3' -57 NC_003409.1 + 110202 0.66 0.849854
Target:  5'- cCCUCGaaauCUGAGauccuguGGGUUgaUGCGGUGCu -3'
miRNA:   3'- uGGAGCgu--GACUU-------CCCAG--ACGUCGCG- -5'
13336 3' -57 NC_003409.1 + 111133 0.66 0.825913
Target:  5'- gGCCuUCGCcCUcaguccGggGGGgCUGgAGCGCc -3'
miRNA:   3'- -UGG-AGCGuGA------CuuCCCaGACgUCGCG- -5'
13336 3' -57 NC_003409.1 + 130135 0.66 0.817299
Target:  5'- aACCUCGuUACUGcAGGcaCUGUacAGCGCc -3'
miRNA:   3'- -UGGAGC-GUGACuUCCcaGACG--UCGCG- -5'
13336 3' -57 NC_003409.1 + 88046 0.67 0.799569
Target:  5'- uGCCg-GUACUGugucAGGGGUCUcCGGCGUc -3'
miRNA:   3'- -UGGagCGUGAC----UUCCCAGAcGUCGCG- -5'
13336 3' -57 NC_003409.1 + 132985 0.67 0.771845
Target:  5'- gACCcCGU--UGGAGGuaCUGCAGCGCg -3'
miRNA:   3'- -UGGaGCGugACUUCCcaGACGUCGCG- -5'
13336 3' -57 NC_003409.1 + 29722 0.68 0.752715
Target:  5'- aACCUUGCcgucuggucACUGGAGGuGUCcGguGCGa -3'
miRNA:   3'- -UGGAGCG---------UGACUUCC-CAGaCguCGCg -5'
13336 3' -57 NC_003409.1 + 131823 0.68 0.752715
Target:  5'- cCCUgGCcgGCUGcAGGGGaCUGCAGCu- -3'
miRNA:   3'- uGGAgCG--UGAC-UUCCCaGACGUCGcg -5'
13336 3' -57 NC_003409.1 + 82695 0.68 0.723237
Target:  5'- gACCUgCGgAC-GgcGGGUCgcucgcuucggUGCAGCGCg -3'
miRNA:   3'- -UGGA-GCgUGaCuuCCCAG-----------ACGUCGCG- -5'
13336 3' -57 NC_003409.1 + 106619 0.68 0.720245
Target:  5'- uACCUCGCAgaGAAGucagcacggguaguGGcucuaccgccUCUGCAGgGCg -3'
miRNA:   3'- -UGGAGCGUgaCUUC--------------CC----------AGACGUCgCG- -5'
13336 3' -57 NC_003409.1 + 112076 0.69 0.681842
Target:  5'- cGCgCUCGCGCgGuuucugaucccuAAGGGUCUGCAGaugauccCGCc -3'
miRNA:   3'- -UG-GAGCGUGaC------------UUCCCAGACGUC-------GCG- -5'
13336 3' -57 NC_003409.1 + 105875 0.69 0.652104
Target:  5'- gAUCUCGCACauUGcGGGGaUCUcCAGUGCg -3'
miRNA:   3'- -UGGAGCGUG--ACuUCCC-AGAcGUCGCG- -5'
13336 3' -57 NC_003409.1 + 52164 0.7 0.590369
Target:  5'- aGCUcagUCGCAC-GggGGGUggcCUGUGGCGUg -3'
miRNA:   3'- -UGG---AGCGUGaCuuCCCA---GACGUCGCG- -5'
13336 3' -57 NC_003409.1 + 108296 0.74 0.396738
Target:  5'- uCCUCGCGCgaugcuuuucucuGGGccUCUGCGGCGCg -3'
miRNA:   3'- uGGAGCGUGacuu---------CCC--AGACGUCGCG- -5'
13336 3' -57 NC_003409.1 + 46790 0.75 0.365959
Target:  5'- cACgaCGUACUGGA-GGUCUGUAGUGCu -3'
miRNA:   3'- -UGgaGCGUGACUUcCCAGACGUCGCG- -5'
13336 3' -57 NC_003409.1 + 97728 0.77 0.277878
Target:  5'- gACCagGCACUc-GGGGUCUGCcGCGCa -3'
miRNA:   3'- -UGGagCGUGAcuUCCCAGACGuCGCG- -5'
13336 3' -57 NC_003409.1 + 115979 1.1 0.001633
Target:  5'- uACCUCGCACUGAAGGGUCUGCAGCGCc -3'
miRNA:   3'- -UGGAGCGUGACUUCCCAGACGUCGCG- -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.