miRNA display CGI


Results 1 - 20 of 177 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
19009 3' -56.6 NC_004684.1 + 65856 0.66 0.720696
Target:  5'- gGgGGCCGCugguGCCACCucggAGggGuUGAcGCc -3'
miRNA:   3'- gCgCCGGUG----CGGUGG----UCuuC-ACUuCG- -5'
19009 3' -56.6 NC_004684.1 + 35170 0.66 0.720696
Target:  5'- gGUGGCCGaGCCggaACCGGguGUGcAGUg -3'
miRNA:   3'- gCGCCGGUgCGG---UGGUCuuCACuUCG- -5'
19009 3' -56.6 NC_004684.1 + 61447 0.66 0.720696
Target:  5'- gCGCGGCCAgGUUggACCGcccGGUGGccAGCg -3'
miRNA:   3'- -GCGCCGGUgCGG--UGGUcu-UCACU--UCG- -5'
19009 3' -56.6 NC_004684.1 + 63695 0.66 0.720696
Target:  5'- gCGCGGCgGCGCUggcgaucuccuGCCAGcgugccaacaGGGUGu-GCg -3'
miRNA:   3'- -GCGCCGgUGCGG-----------UGGUC----------UUCACuuCG- -5'
19009 3' -56.6 NC_004684.1 + 15781 0.66 0.717565
Target:  5'- uCGCGGCgGCGaCACCGGcAAcGUGcacaccaccacgccGAGCg -3'
miRNA:   3'- -GCGCCGgUGCgGUGGUC-UU-CAC--------------UUCG- -5'
19009 3' -56.6 NC_004684.1 + 11611 0.66 0.710233
Target:  5'- -cCGGUCACGCCGCCAucGAAGg----- -3'
miRNA:   3'- gcGCCGGUGCGGUGGU--CUUCacuucg -5'
19009 3' -56.6 NC_004684.1 + 44908 0.66 0.710233
Target:  5'- aGCGGUUggcCGCUGCCAGGgaaccGGccUGGAGCg -3'
miRNA:   3'- gCGCCGGu--GCGGUGGUCU-----UC--ACUUCG- -5'
19009 3' -56.6 NC_004684.1 + 57010 0.66 0.710233
Target:  5'- gGCGGCCugGUacCCGGcGGUGcgcGCg -3'
miRNA:   3'- gCGCCGGugCGguGGUCuUCACuu-CG- -5'
19009 3' -56.6 NC_004684.1 + 26690 0.66 0.710233
Target:  5'- -cCGGCCAcCGCCGCCc--AGcUGAAGUu -3'
miRNA:   3'- gcGCCGGU-GCGGUGGucuUC-ACUUCG- -5'
19009 3' -56.6 NC_004684.1 + 31995 0.66 0.710233
Target:  5'- gGCGGCuCAUccgGCCACCAGGuugcccUGuuGCg -3'
miRNA:   3'- gCGCCG-GUG---CGGUGGUCUuc----ACuuCG- -5'
19009 3' -56.6 NC_004684.1 + 55555 0.66 0.710233
Target:  5'- cCGCuGGCCGCcgugGCCcggugGCCGGggGUccAGGCa -3'
miRNA:   3'- -GCG-CCGGUG----CGG-----UGGUCuuCAc-UUCG- -5'
19009 3' -56.6 NC_004684.1 + 61929 0.66 0.710233
Target:  5'- uGCgGGCCACGgcacCCGCCGGGccUGguGCa -3'
miRNA:   3'- gCG-CCGGUGC----GGUGGUCUucACuuCG- -5'
19009 3' -56.6 NC_004684.1 + 64883 0.66 0.710233
Target:  5'- -cCGGUCGCGCCcCCGGGuaccgaaaucAGUGGgucuuGGCg -3'
miRNA:   3'- gcGCCGGUGCGGuGGUCU----------UCACU-----UCG- -5'
19009 3' -56.6 NC_004684.1 + 9713 0.66 0.710233
Target:  5'- uGCcuGGCCGaugGCCACCuGcuGUGggGUc -3'
miRNA:   3'- gCG--CCGGUg--CGGUGGuCuuCACuuCG- -5'
19009 3' -56.6 NC_004684.1 + 7909 0.66 0.710233
Target:  5'- gGUGGCCGC-CaGCCAGccGGUGGAGa -3'
miRNA:   3'- gCGCCGGUGcGgUGGUCu-UCACUUCg -5'
19009 3' -56.6 NC_004684.1 + 44877 0.66 0.710233
Target:  5'- cCGgGGUCGCG-CACCGGAcggaaccaGGUGGcacguuGGCg -3'
miRNA:   3'- -GCgCCGGUGCgGUGGUCU--------UCACU------UCG- -5'
19009 3' -56.6 NC_004684.1 + 63373 0.66 0.710233
Target:  5'- aGCGGCCgACG-CGCCAGccGaUGGcGGCg -3'
miRNA:   3'- gCGCCGG-UGCgGUGGUCuuC-ACU-UCG- -5'
19009 3' -56.6 NC_004684.1 + 23673 0.66 0.709183
Target:  5'- cCGaCGGCCugGUCggcccggACCAGAGcGUGGccuccaaccugGGCg -3'
miRNA:   3'- -GC-GCCGGugCGG-------UGGUCUU-CACU-----------UCG- -5'
19009 3' -56.6 NC_004684.1 + 25441 0.66 0.703921
Target:  5'- cCGCuGGCCugucggacugcuccgGUGCCAUCAGcgaccuGGUGGAGCu -3'
miRNA:   3'- -GCG-CCGG---------------UGCGGUGGUCu-----UCACUUCG- -5'
19009 3' -56.6 NC_004684.1 + 36224 0.66 0.703921
Target:  5'- gCGUGGCCAcCGCCgagaccgcuggcgugGCCAaGAGcuaUGAGGUg -3'
miRNA:   3'- -GCGCCGGU-GCGG---------------UGGUcUUC---ACUUCG- -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.