miRNA display CGI


Results 1 - 17 of 17 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
9005 5' -55.9 NC_002512.2 + 184701 0.66 0.970103
Target:  5'- uGACCCaCCUuauuucccGUCguuaCCGCGGUaaCUCGa -3'
miRNA:   3'- gCUGGG-GGA--------CAGa---GGCGUCAaaGAGC- -5'
9005 5' -55.9 NC_002512.2 + 188663 0.66 0.970103
Target:  5'- gCGGCCCgUcGUCcgaCCGCGGcggUCUCGg -3'
miRNA:   3'- -GCUGGGgGaCAGa--GGCGUCaa-AGAGC- -5'
9005 5' -55.9 NC_002512.2 + 92066 0.66 0.964074
Target:  5'- aCGugCUgCUGUCgcacgaCGCAGU-UCUCGu -3'
miRNA:   3'- -GCugGGgGACAGag----GCGUCAaAGAGC- -5'
9005 5' -55.9 NC_002512.2 + 158220 0.66 0.957242
Target:  5'- -uACCUCCUGUCcgggCCGCccaAGUUcggCUCGg -3'
miRNA:   3'- gcUGGGGGACAGa---GGCG---UCAAa--GAGC- -5'
9005 5' -55.9 NC_002512.2 + 24166 0.67 0.951175
Target:  5'- cCGACCCcgacuugugccgccgCCUGUCgCCGguGUcgUUCGa -3'
miRNA:   3'- -GCUGGG---------------GGACAGaGGCguCAaaGAGC- -5'
9005 5' -55.9 NC_002512.2 + 212803 0.67 0.949572
Target:  5'- --uCCCCCUGUCgCCGU--UUUCUCc -3'
miRNA:   3'- gcuGGGGGACAGaGGCGucAAAGAGc -5'
9005 5' -55.9 NC_002512.2 + 202244 0.67 0.949572
Target:  5'- cCGACCUCCcGUUUCCGCcucgcgcccggAGcgUCUCu -3'
miRNA:   3'- -GCUGGGGGaCAGAGGCG-----------UCaaAGAGc -5'
9005 5' -55.9 NC_002512.2 + 185983 0.67 0.945415
Target:  5'- aCGGCCuguCCCUGUCgCCGUGGUgggUCgucCGg -3'
miRNA:   3'- -GCUGG---GGGACAGaGGCGUCAa--AGa--GC- -5'
9005 5' -55.9 NC_002512.2 + 91624 0.67 0.931622
Target:  5'- gGGCCCCCgcgggGaUCUCCaGCGGg--UUCGg -3'
miRNA:   3'- gCUGGGGGa----C-AGAGG-CGUCaaaGAGC- -5'
9005 5' -55.9 NC_002512.2 + 205 0.67 0.92658
Target:  5'- uGGCCCCCcGUCgcgCCGCuc--UCUCu -3'
miRNA:   3'- gCUGGGGGaCAGa--GGCGucaaAGAGc -5'
9005 5' -55.9 NC_002512.2 + 229608 0.67 0.92658
Target:  5'- uGGCCCCCcGUCgcgCCGCuc--UCUCu -3'
miRNA:   3'- gCUGGGGGaCAGa--GGCGucaaAGAGc -5'
9005 5' -55.9 NC_002512.2 + 126956 0.68 0.910116
Target:  5'- uCGACCCUCUGgcgCucccaguaggggUCCGCGGUccUCUCc -3'
miRNA:   3'- -GCUGGGGGACa--G------------AGGCGUCAa-AGAGc -5'
9005 5' -55.9 NC_002512.2 + 209658 0.68 0.910116
Target:  5'- gCGugCCCCUGUCgaugaugCCGCuGgccCUCu -3'
miRNA:   3'- -GCugGGGGACAGa------GGCGuCaaaGAGc -5'
9005 5' -55.9 NC_002512.2 + 129370 0.68 0.904186
Target:  5'- -cGCCUUCUGUCUCgUGCGGgugCUCGa -3'
miRNA:   3'- gcUGGGGGACAGAG-GCGUCaaaGAGC- -5'
9005 5' -55.9 NC_002512.2 + 10070 0.69 0.885095
Target:  5'- cCGACCCCCUGUCgcgccCCGCGcg-UCc-- -3'
miRNA:   3'- -GCUGGGGGACAGa----GGCGUcaaAGagc -5'
9005 5' -55.9 NC_002512.2 + 21337 0.71 0.800078
Target:  5'- aCGcACCgCCCUGcugaUCCGCAGggacUUCUCGa -3'
miRNA:   3'- -GC-UGG-GGGACag--AGGCGUCa---AAGAGC- -5'
9005 5' -55.9 NC_002512.2 + 180069 1.09 0.0051
Target:  5'- aCGACCCCCUGUCUCCGCAGUUUCUCGu -3'
miRNA:   3'- -GCUGGGGGACAGAGGCGUCAAAGAGC- -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.