miRNA display CGI


Results 1 - 20 of 24 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
18282 3' -54.9 NC_004681.1 + 6629 0.66 0.839325
Target:  5'- gGGugGCU--UCUGCAugAGgcgCCGCGGCu -3'
miRNA:   3'- -CCugCGAgaGGACGU--UCa--GGUGCUGc -5'
18282 3' -54.9 NC_004681.1 + 50059 0.66 0.821827
Target:  5'- cGACGCcaUCgacugCCUGCGGGUCgACGuCc -3'
miRNA:   3'- cCUGCG--AGa----GGACGUUCAGgUGCuGc -5'
18282 3' -54.9 NC_004681.1 + 74819 0.66 0.816427
Target:  5'- cGGAUGCUCcagugCUUGCAagcguugcucuaugaGGUCUACaGCGg -3'
miRNA:   3'- -CCUGCGAGa----GGACGU---------------UCAGGUGcUGC- -5'
18282 3' -54.9 NC_004681.1 + 48689 0.66 0.81279
Target:  5'- cGGAUGC-CUgccUCUGCGAGggcguggcCCACGAUGc -3'
miRNA:   3'- -CCUGCGaGA---GGACGUUCa-------GGUGCUGC- -5'
18282 3' -54.9 NC_004681.1 + 45202 0.67 0.803575
Target:  5'- cGGCGUcggccccggUCUUgaGCGAGaCCGCGGCGa -3'
miRNA:   3'- cCUGCG---------AGAGgaCGUUCaGGUGCUGC- -5'
18282 3' -54.9 NC_004681.1 + 47187 0.67 0.803575
Target:  5'- cGGCgGCUCgUCCU-UggGUUCGCGGCGg -3'
miRNA:   3'- cCUG-CGAG-AGGAcGuuCAGGUGCUGC- -5'
18282 3' -54.9 NC_004681.1 + 8962 0.67 0.803575
Target:  5'- uGGAUGCcUUCgaGCAGGcggcCCugGACGa -3'
miRNA:   3'- -CCUGCGaGAGgaCGUUCa---GGugCUGC- -5'
18282 3' -54.9 NC_004681.1 + 7239 0.67 0.803575
Target:  5'- -cGCGCuUCUCCagGCca-UCCACGACGc -3'
miRNA:   3'- ccUGCG-AGAGGa-CGuucAGGUGCUGC- -5'
18282 3' -54.9 NC_004681.1 + 30974 0.67 0.794189
Target:  5'- gGGuguCGCggggCUCCaGCGGGUCgGCGgGCGg -3'
miRNA:   3'- -CCu--GCGa---GAGGaCGUUCAGgUGC-UGC- -5'
18282 3' -54.9 NC_004681.1 + 21433 0.68 0.745066
Target:  5'- uGACGC-Cg-CUGCGGucgaccacGUCCACGACGa -3'
miRNA:   3'- cCUGCGaGagGACGUU--------CAGGUGCUGC- -5'
18282 3' -54.9 NC_004681.1 + 30906 0.68 0.724585
Target:  5'- cGGACG-UCUCCgaaugGCAAGUgCCGguCGAUGu -3'
miRNA:   3'- -CCUGCgAGAGGa----CGUUCA-GGU--GCUGC- -5'
18282 3' -54.9 NC_004681.1 + 12057 0.69 0.682664
Target:  5'- gGGACGUUCUCCagcgGCAGGUuguaCCGCa--- -3'
miRNA:   3'- -CCUGCGAGAGGa---CGUUCA----GGUGcugc -5'
18282 3' -54.9 NC_004681.1 + 16753 0.69 0.672044
Target:  5'- uGACGCUCcggUCCUGCcuGUCgaCACGuCGg -3'
miRNA:   3'- cCUGCGAG---AGGACGuuCAG--GUGCuGC- -5'
18282 3' -54.9 NC_004681.1 + 63175 0.69 0.661388
Target:  5'- --cCGCUCgacacCCUGau-GUCCGCGGCGg -3'
miRNA:   3'- ccuGCGAGa----GGACguuCAGGUGCUGC- -5'
18282 3' -54.9 NC_004681.1 + 45911 0.69 0.640009
Target:  5'- aGGCGUUCggagUCCUGCAGGgagcUCCAUGAgGu -3'
miRNA:   3'- cCUGCGAG----AGGACGUUC----AGGUGCUgC- -5'
18282 3' -54.9 NC_004681.1 + 6966 0.69 0.640009
Target:  5'- uGGACGCcuacuUCUCCUcacgaaGCAGGcCCAgGAUGu -3'
miRNA:   3'- -CCUGCG-----AGAGGA------CGUUCaGGUgCUGC- -5'
18282 3' -54.9 NC_004681.1 + 51963 0.7 0.618603
Target:  5'- aGGAC-CUCccCCUGgAAaUCCACGACGa -3'
miRNA:   3'- -CCUGcGAGa-GGACgUUcAGGUGCUGC- -5'
18282 3' -54.9 NC_004681.1 + 19290 0.71 0.544463
Target:  5'- cGACGC-CUUCUGgAAGUCCuuCGACu -3'
miRNA:   3'- cCUGCGaGAGGACgUUCAGGu-GCUGc -5'
18282 3' -54.9 NC_004681.1 + 7136 0.72 0.503357
Target:  5'- gGGAUGCggugaUCCUGC-AGUCCAaGGCGc -3'
miRNA:   3'- -CCUGCGag---AGGACGuUCAGGUgCUGC- -5'
18282 3' -54.9 NC_004681.1 + 59621 0.72 0.503357
Target:  5'- aGGGCGCUCgacaUCCgGCAcGUCCACaaGCGg -3'
miRNA:   3'- -CCUGCGAG----AGGaCGUuCAGGUGc-UGC- -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.