miRNA display CGI


Results 1 - 20 of 33 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
6727 3' -60.1 NC_001875.2 + 88255 0.66 0.727996
Target:  5'- aCGGGCGuuG-GCUGG-CUUGGCUgcuGCg -3'
miRNA:   3'- -GCCUGCucCaCGACCuGGACCGGu--CG- -5'
6727 3' -60.1 NC_001875.2 + 128889 0.66 0.718298
Target:  5'- gGGGCGcGGcucgcgGCgcaGACCUGGgCGGCg -3'
miRNA:   3'- gCCUGCuCCa-----CGac-CUGGACCgGUCG- -5'
6727 3' -60.1 NC_001875.2 + 19346 0.66 0.718298
Target:  5'- uGGGCGuGGUGCgcGGAgCguUGGCCGa- -3'
miRNA:   3'- gCCUGCuCCACGa-CCUgG--ACCGGUcg -5'
6727 3' -60.1 NC_001875.2 + 16227 0.66 0.708529
Target:  5'- uCGGGCGAGuGUGaCUGcggcGACgaGGCCGucacGCg -3'
miRNA:   3'- -GCCUGCUC-CAC-GAC----CUGgaCCGGU----CG- -5'
6727 3' -60.1 NC_001875.2 + 109169 0.66 0.688814
Target:  5'- --aACGAGGUGCUcaGCCUGGUCAc- -3'
miRNA:   3'- gccUGCUCCACGAccUGGACCGGUcg -5'
6727 3' -60.1 NC_001875.2 + 68260 0.66 0.678883
Target:  5'- -cGACGuGGUGCUGcucGugUUGGCCAu- -3'
miRNA:   3'- gcCUGCuCCACGAC---CugGACCGGUcg -5'
6727 3' -60.1 NC_001875.2 + 117345 0.67 0.668917
Target:  5'- -cGACGAGGUGCcGG-CCUGcaGCCAc- -3'
miRNA:   3'- gcCUGCUCCACGaCCuGGAC--CGGUcg -5'
6727 3' -60.1 NC_001875.2 + 83458 0.67 0.658921
Target:  5'- -aGACGccGGUGCUGGGCCacgUGuGCguGCu -3'
miRNA:   3'- gcCUGCu-CCACGACCUGG---AC-CGguCG- -5'
6727 3' -60.1 NC_001875.2 + 72591 0.67 0.65792
Target:  5'- gCGGGCGcugcGGGcGCuUGGGCCUccagguuguuuacGGCCuGCg -3'
miRNA:   3'- -GCCUGC----UCCaCG-ACCUGGA-------------CCGGuCG- -5'
6727 3' -60.1 NC_001875.2 + 111880 0.67 0.648905
Target:  5'- aCGG-CGAGGcgccgGCcGGACCgugcGcGCCGGCc -3'
miRNA:   3'- -GCCuGCUCCa----CGaCCUGGa---C-CGGUCG- -5'
6727 3' -60.1 NC_001875.2 + 49521 0.67 0.648905
Target:  5'- gCGGaccGCGAccagucgcuGGUGCUGGACUUGgggcccgacGCCAGa -3'
miRNA:   3'- -GCC---UGCU---------CCACGACCUGGAC---------CGGUCg -5'
6727 3' -60.1 NC_001875.2 + 118661 0.67 0.647902
Target:  5'- uGaACGAGGUGCUgcacgccGGACacuUGGCguGCg -3'
miRNA:   3'- gCcUGCUCCACGA-------CCUGg--ACCGguCG- -5'
6727 3' -60.1 NC_001875.2 + 47489 0.67 0.61881
Target:  5'- uCGGGCGAccaaaaugcaGUGCUGGAugcauCCUcGGCgAGCg -3'
miRNA:   3'- -GCCUGCUc---------CACGACCU-----GGA-CCGgUCG- -5'
6727 3' -60.1 NC_001875.2 + 52461 0.68 0.608788
Target:  5'- -cGACGAGGaGCuguuUGGGCUguccGGCCAGUu -3'
miRNA:   3'- gcCUGCUCCaCG----ACCUGGa---CCGGUCG- -5'
6727 3' -60.1 NC_001875.2 + 88354 0.68 0.608788
Target:  5'- aCGGACGAGGUGUcguaGCUgucGGgCAGCg -3'
miRNA:   3'- -GCCUGCUCCACGacc-UGGa--CCgGUCG- -5'
6727 3' -60.1 NC_001875.2 + 20428 0.68 0.588801
Target:  5'- uGGcCGAGGUGCaGGAaaaUUGcGaCCAGCg -3'
miRNA:   3'- gCCuGCUCCACGaCCUg--GAC-C-GGUCG- -5'
6727 3' -60.1 NC_001875.2 + 105895 0.68 0.588801
Target:  5'- uGGGCGAGGaGCUcaucGACCagugGGgCAGCg -3'
miRNA:   3'- gCCUGCUCCaCGAc---CUGGa---CCgGUCG- -5'
6727 3' -60.1 NC_001875.2 + 98410 0.68 0.57885
Target:  5'- gCGGACGuuGUGUUucaagcGGACgaGcGCCAGCu -3'
miRNA:   3'- -GCCUGCucCACGA------CCUGgaC-CGGUCG- -5'
6727 3' -60.1 NC_001875.2 + 45743 0.68 0.568935
Target:  5'- cCGGAguCGGGcccGCUGGACUUGG-CGGCg -3'
miRNA:   3'- -GCCU--GCUCca-CGACCUGGACCgGUCG- -5'
6727 3' -60.1 NC_001875.2 + 109415 0.68 0.568935
Target:  5'- cCGGGCGcGGcGCguuGGCC-GGCCGGCu -3'
miRNA:   3'- -GCCUGCuCCaCGac-CUGGaCCGGUCG- -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.