miRNA display CGI


Results 1 - 20 of 118 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
5142 3' -57.3 NC_001798.1 + 15830 0.66 0.885155
Target:  5'- -cGCCGCCCgguUCggGggGCcCGaACGUCGg -3'
miRNA:   3'- guUGGCGGG---GGa-CuuCGuGC-UGCAGC- -5'
5142 3' -57.3 NC_001798.1 + 2992 0.66 0.885155
Target:  5'- cCGGcCCGCgggCCCCgggcgcgGggGCGCGGCGggcCGg -3'
miRNA:   3'- -GUU-GGCG---GGGGa------CuuCGUGCUGCa--GC- -5'
5142 3' -57.3 NC_001798.1 + 135594 0.66 0.885155
Target:  5'- --cUCGCCCCCUcccuGGCGCcagagGGCGUCu -3'
miRNA:   3'- guuGGCGGGGGAcu--UCGUG-----CUGCAGc -5'
5142 3' -57.3 NC_001798.1 + 91780 0.66 0.885155
Target:  5'- gCGGCCacGCCCCCUGccgaugacGCGCGggGCGUgGg -3'
miRNA:   3'- -GUUGG--CGGGGGACuu------CGUGC--UGCAgC- -5'
5142 3' -57.3 NC_001798.1 + 51430 0.66 0.885155
Target:  5'- uGACgGCCCC--GggGCGCGGCcuuccgcgacgGUCGa -3'
miRNA:   3'- gUUGgCGGGGgaCuuCGUGCUG-----------CAGC- -5'
5142 3' -57.3 NC_001798.1 + 27210 0.66 0.885155
Target:  5'- gGGaaGCCCCC-GggGCGgGGCG-CGg -3'
miRNA:   3'- gUUggCGGGGGaCuuCGUgCUGCaGC- -5'
5142 3' -57.3 NC_001798.1 + 149152 0.66 0.885155
Target:  5'- --cCUGCCCCC-GAGGCGCcucggccgGugGUCc -3'
miRNA:   3'- guuGGCGGGGGaCUUCGUG--------CugCAGc -5'
5142 3' -57.3 NC_001798.1 + 25309 0.66 0.884473
Target:  5'- uCGGCCGCCgCCCUGGAGgccuacugcgcccCGCGGgcCGUgGc -3'
miRNA:   3'- -GUUGGCGG-GGGACUUC-------------GUGCU--GCAgC- -5'
5142 3' -57.3 NC_001798.1 + 90992 0.66 0.878245
Target:  5'- -cACCGCCCCaCaGgcGCaaGCGACG-CGg -3'
miRNA:   3'- guUGGCGGGG-GaCuuCG--UGCUGCaGC- -5'
5142 3' -57.3 NC_001798.1 + 48086 0.66 0.878245
Target:  5'- -cACCGCCCCaccGAGCcccACGGCGcCGu -3'
miRNA:   3'- guUGGCGGGGgacUUCG---UGCUGCaGC- -5'
5142 3' -57.3 NC_001798.1 + 117078 0.66 0.878245
Target:  5'- gCAGCaCGCCCgCgaGAGCGCGGCGg-- -3'
miRNA:   3'- -GUUG-GCGGGgGacUUCGUGCUGCagc -5'
5142 3' -57.3 NC_001798.1 + 40814 0.66 0.878245
Target:  5'- gGAgCGCCCCCUGGGggccGCugGuuccGCGUUu -3'
miRNA:   3'- gUUgGCGGGGGACUU----CGugC----UGCAGc -5'
5142 3' -57.3 NC_001798.1 + 84216 0.66 0.878245
Target:  5'- ---gCGCCCCCcGggGCGcCGugGggcCGg -3'
miRNA:   3'- guugGCGGGGGaCuuCGU-GCugCa--GC- -5'
5142 3' -57.3 NC_001798.1 + 109432 0.66 0.878245
Target:  5'- cCGGCgGCCCgCCUGcGGCugGAgG-CGc -3'
miRNA:   3'- -GUUGgCGGG-GGACuUCGugCUgCaGC- -5'
5142 3' -57.3 NC_001798.1 + 4754 0.66 0.878245
Target:  5'- gGGCCGCCUCgUcGGcaucggcaucGGCgGCGGCGUCGu -3'
miRNA:   3'- gUUGGCGGGGgA-CU----------UCG-UGCUGCAGC- -5'
5142 3' -57.3 NC_001798.1 + 31202 0.66 0.877542
Target:  5'- cCGACCggcGCCCCCUGGcgccccgcggagcAGCagcaGCGGCGgCGc -3'
miRNA:   3'- -GUUGG---CGGGGGACU-------------UCG----UGCUGCaGC- -5'
5142 3' -57.3 NC_001798.1 + 85987 0.66 0.871122
Target:  5'- aGGCCGCCgCC-GggGCGCuGGCG-Ca -3'
miRNA:   3'- gUUGGCGGgGGaCuuCGUG-CUGCaGc -5'
5142 3' -57.3 NC_001798.1 + 52849 0.66 0.871122
Target:  5'- --cCCGcCCCCCUGAAuaGCGA-GUCc -3'
miRNA:   3'- guuGGC-GGGGGACUUcgUGCUgCAGc -5'
5142 3' -57.3 NC_001798.1 + 51119 0.66 0.868215
Target:  5'- gAGCCGCCCCCgcgccgucgccggGAGGCcCG-CGgUCa -3'
miRNA:   3'- gUUGGCGGGGGa------------CUUCGuGCuGC-AGc -5'
5142 3' -57.3 NC_001798.1 + 23863 0.66 0.866749
Target:  5'- aCAGCCGCCCCggccuCUGggGgGCGcccgaggcggaggagGCG-CGg -3'
miRNA:   3'- -GUUGGCGGGG-----GACuuCgUGC---------------UGCaGC- -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.