miRNA display CGI


Results 1 - 20 of 47 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
21465 3' -54.1 NC_004812.1 + 82468 1.1 0.004059
Target:  5'- cGGAACGCCGCUGCAGUACGUCGUGUGc -3'
miRNA:   3'- -CCUUGCGGCGACGUCAUGCAGCACAC- -5'
21465 3' -54.1 NC_004812.1 + 58444 0.76 0.510058
Target:  5'- aGGAuCGCCGUgaggguguuaaUGUAGUACGUCGaGUGg -3'
miRNA:   3'- -CCUuGCGGCG-----------ACGUCAUGCAGCaCAC- -5'
21465 3' -54.1 NC_004812.1 + 55861 0.74 0.641491
Target:  5'- -aGGCGCCGCaGCAGggGCGUCGUcagGUGu -3'
miRNA:   3'- ccUUGCGGCGaCGUCa-UGCAGCA---CAC- -5'
21465 3' -54.1 NC_004812.1 + 134090 0.73 0.69258
Target:  5'- gGGGGCGCCGaCgucGCGGUGCGUgaCG-GUGg -3'
miRNA:   3'- -CCUUGCGGC-Ga--CGUCAUGCA--GCaCAC- -5'
21465 3' -54.1 NC_004812.1 + 28935 0.72 0.742393
Target:  5'- cGGAAUGCCGCc-CGGggACGUCGUGc- -3'
miRNA:   3'- -CCUUGCGGCGacGUCa-UGCAGCACac -5'
21465 3' -54.1 NC_004812.1 + 51617 0.71 0.761704
Target:  5'- aGGGGCGCCGCgGCGGcccGCGgccgCGUGc- -3'
miRNA:   3'- -CCUUGCGGCGaCGUCa--UGCa---GCACac -5'
21465 3' -54.1 NC_004812.1 + 56113 0.71 0.789779
Target:  5'- --cACGCCGCUGCGGUACGcCu---- -3'
miRNA:   3'- ccuUGCGGCGACGUCAUGCaGcacac -5'
21465 3' -54.1 NC_004812.1 + 53591 0.71 0.789779
Target:  5'- aGGGCGUacuCGgUGCGGUugGUCGUGa- -3'
miRNA:   3'- cCUUGCG---GCgACGUCAugCAGCACac -5'
21465 3' -54.1 NC_004812.1 + 145135 0.7 0.807796
Target:  5'- cGAGCGgCggGCUGUAcguGUGCGUCGUGUa -3'
miRNA:   3'- cCUUGCgG--CGACGU---CAUGCAGCACAc -5'
21465 3' -54.1 NC_004812.1 + 21175 0.7 0.833596
Target:  5'- cGGGACGCCGagGCGc-GCGUCGUGg- -3'
miRNA:   3'- -CCUUGCGGCgaCGUcaUGCAGCACac -5'
21465 3' -54.1 NC_004812.1 + 63351 0.7 0.841837
Target:  5'- aGAACGuCCGCUGCAGguucGCGcCGUa-- -3'
miRNA:   3'- cCUUGC-GGCGACGUCa---UGCaGCAcac -5'
21465 3' -54.1 NC_004812.1 + 45997 0.7 0.841837
Target:  5'- -cGGCGCCGUUGCGG-GCGgggCGUGg- -3'
miRNA:   3'- ccUUGCGGCGACGUCaUGCa--GCACac -5'
21465 3' -54.1 NC_004812.1 + 48426 0.7 0.849886
Target:  5'- ---cCGCCGCUGCGGUACGaCGc--- -3'
miRNA:   3'- ccuuGCGGCGACGUCAUGCaGCacac -5'
21465 3' -54.1 NC_004812.1 + 103552 0.7 0.849886
Target:  5'- uGAGCGCCGCcugGCGGUGCagcugccgCGUGcUGg -3'
miRNA:   3'- cCUUGCGGCGa--CGUCAUGca------GCAC-AC- -5'
21465 3' -54.1 NC_004812.1 + 42109 0.69 0.857737
Target:  5'- uGAACGCCGCgaagaagaaGCAGUGgauCGuuccUCGUGUGu -3'
miRNA:   3'- cCUUGCGGCGa--------CGUCAU---GC----AGCACAC- -5'
21465 3' -54.1 NC_004812.1 + 68952 0.69 0.857737
Target:  5'- uGAugGCCGCgaggGUcgAGUGgGUCGUgGUGg -3'
miRNA:   3'- cCUugCGGCGa---CG--UCAUgCAGCA-CAC- -5'
21465 3' -54.1 NC_004812.1 + 144095 0.69 0.88003
Target:  5'- aGGAGuCcCCGCUGCcGUACGUgGUGcUGc -3'
miRNA:   3'- -CCUU-GcGGCGACGuCAUGCAgCAC-AC- -5'
21465 3' -54.1 NC_004812.1 + 108015 0.69 0.887024
Target:  5'- cGGAugGCCGCgGCc--GCGUCGccgccgGUGg -3'
miRNA:   3'- -CCUugCGGCGaCGucaUGCAGCa-----CAC- -5'
21465 3' -54.1 NC_004812.1 + 36867 0.68 0.900326
Target:  5'- gGGGAgGCCGCggggggGCgAGUACG-CGggGUGg -3'
miRNA:   3'- -CCUUgCGGCGa-----CG-UCAUGCaGCa-CAC- -5'
21465 3' -54.1 NC_004812.1 + 138020 0.68 0.906627
Target:  5'- cGGGACGCCGCcgGCgcgGGUGCGgCGg--- -3'
miRNA:   3'- -CCUUGCGGCGa-CG---UCAUGCaGCacac -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.