miRNA display CGI


Results 1 - 13 of 13 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
18196 3' -53.6 NC_004680.1 + 11094 0.66 0.827438
Target:  5'- -gCCGGCUgGCCcGAUGGGG---AGGc -3'
miRNA:   3'- uaGGUCGAgCGGcUUACCCUguuUCC- -5'
18196 3' -53.6 NC_004680.1 + 36250 0.66 0.827438
Target:  5'- -aCCAGCgguccUCGCCGcccUGcGGGCAuGGGa -3'
miRNA:   3'- uaGGUCG-----AGCGGCuu-AC-CCUGUuUCC- -5'
18196 3' -53.6 NC_004680.1 + 57596 0.66 0.779116
Target:  5'- -cCCuGUUCGaucugggCGAAUGGGACGAucAGGu -3'
miRNA:   3'- uaGGuCGAGCg------GCUUACCCUGUU--UCC- -5'
18196 3' -53.6 NC_004680.1 + 4426 0.67 0.768938
Target:  5'- uAUCCAGaC-CGCCGAggGGGuCAGcgcuGGa -3'
miRNA:   3'- -UAGGUC-GaGCGGCUuaCCCuGUUu---CC- -5'
18196 3' -53.6 NC_004680.1 + 35598 0.67 0.758616
Target:  5'- -cCCAGCgcagGCCGAcUGGGaACGAcucGGGa -3'
miRNA:   3'- uaGGUCGag--CGGCUuACCC-UGUU---UCC- -5'
18196 3' -53.6 NC_004680.1 + 6636 0.67 0.737586
Target:  5'- -cCCGGUUCGCCGGugaaGGugAAAGa -3'
miRNA:   3'- uaGGUCGAGCGGCUuac-CCugUUUCc -5'
18196 3' -53.6 NC_004680.1 + 47359 0.67 0.737586
Target:  5'- uAUCCgggaAGCgUUGCgUGAAUGGGaACGAAGGc -3'
miRNA:   3'- -UAGG----UCG-AGCG-GCUUACCC-UGUUUCC- -5'
18196 3' -53.6 NC_004680.1 + 50185 0.67 0.737586
Target:  5'- gGUCCuaccggcuGCUCGCCGAAUuGGuaGCcGAGGu -3'
miRNA:   3'- -UAGGu-------CGAGCGGCUUAcCC--UGuUUCC- -5'
18196 3' -53.6 NC_004680.1 + 38875 0.68 0.709612
Target:  5'- -cCCAGC-CGuuGGAgggucccggcgcggGGGGCGGGGGa -3'
miRNA:   3'- uaGGUCGaGCggCUUa-------------CCCUGUUUCC- -5'
18196 3' -53.6 NC_004680.1 + 4753 0.68 0.694317
Target:  5'- uUCCAGUUCuUCGAuccGGGACAgcGGg -3'
miRNA:   3'- uAGGUCGAGcGGCUua-CCCUGUuuCC- -5'
18196 3' -53.6 NC_004680.1 + 27091 0.72 0.436161
Target:  5'- -aCC-GCUaCGCCGAcaaAUGGGACGAAGc -3'
miRNA:   3'- uaGGuCGA-GCGGCU---UACCCUGUUUCc -5'
18196 3' -53.6 NC_004680.1 + 20013 0.76 0.268518
Target:  5'- gAUCCGGUguugcCGCCGuAUGGGACGAAcGGu -3'
miRNA:   3'- -UAGGUCGa----GCGGCuUACCCUGUUU-CC- -5'
18196 3' -53.6 NC_004680.1 + 30003 1.08 0.001761
Target:  5'- uAUCCAGCUCGCCGAAUGGGACAAAGGu -3'
miRNA:   3'- -UAGGUCGAGCGGCUUACCCUGUUUCC- -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.