miRNA display CGI


Results 1 - 20 of 75 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
11571 3' -55.2 NC_003085.1 + 26261 1.1 0.000669
Target:  5'- uGGACGCACCUGCAGCAGCAAUGGACGu -3'
miRNA:   3'- -CCUGCGUGGACGUCGUCGUUACCUGC- -5'
11571 3' -55.2 NC_003085.1 + 898 0.79 0.122296
Target:  5'- aGACGCgcucgacgACCUGCGGCGGCAcgcGGACGu -3'
miRNA:   3'- cCUGCG--------UGGACGUCGUCGUua-CCUGC- -5'
11571 3' -55.2 NC_003085.1 + 32952 0.78 0.14083
Target:  5'- aGGCGCGCCUGCcaugcuuGCGGCGAUGG-Ca -3'
miRNA:   3'- cCUGCGUGGACGu------CGUCGUUACCuGc -5'
11571 3' -55.2 NC_003085.1 + 31754 0.76 0.175873
Target:  5'- cGGGCGCACCUucgucccggaaaGUAGCGuGCGGUuGGGCGa -3'
miRNA:   3'- -CCUGCGUGGA------------CGUCGU-CGUUA-CCUGC- -5'
11571 3' -55.2 NC_003085.1 + 37298 0.76 0.190906
Target:  5'- cGACGCACCUGCGgugcGCAGCGGguacacggGGuACGg -3'
miRNA:   3'- cCUGCGUGGACGU----CGUCGUUa-------CC-UGC- -5'
11571 3' -55.2 NC_003085.1 + 28745 0.75 0.218467
Target:  5'- aGACGCACCgGguGCGGgAcgGGugGa -3'
miRNA:   3'- cCUGCGUGGaCguCGUCgUuaCCugC- -5'
11571 3' -55.2 NC_003085.1 + 44489 0.75 0.224372
Target:  5'- aGGugGCGCUggauguugagaUGguGCGGCGcgGGAUGa -3'
miRNA:   3'- -CCugCGUGG-----------ACguCGUCGUuaCCUGC- -5'
11571 3' -55.2 NC_003085.1 + 21480 0.74 0.236588
Target:  5'- aGGGCG-GCCUGC-GCGGCGugGUGGACu -3'
miRNA:   3'- -CCUGCgUGGACGuCGUCGU--UACCUGc -5'
11571 3' -55.2 NC_003085.1 + 26873 0.74 0.26269
Target:  5'- aGGCGCACCUGcCGGCGcCGGUGGGUGg -3'
miRNA:   3'- cCUGCGUGGAC-GUCGUcGUUACCUGC- -5'
11571 3' -55.2 NC_003085.1 + 14197 0.73 0.276597
Target:  5'- cGGGCaGCACggugaUGCcGUGGCAGUGGGCGa -3'
miRNA:   3'- -CCUG-CGUGg----ACGuCGUCGUUACCUGC- -5'
11571 3' -55.2 NC_003085.1 + 20928 0.73 0.283768
Target:  5'- uGGGCgGCACC-GCAGCGGCGAgcucGGCGc -3'
miRNA:   3'- -CCUG-CGUGGaCGUCGUCGUUac--CUGC- -5'
11571 3' -55.2 NC_003085.1 + 12862 0.73 0.291085
Target:  5'- uGGA-GCACCUGCccgacaacGGCGGCAG-GGGCa -3'
miRNA:   3'- -CCUgCGUGGACG--------UCGUCGUUaCCUGc -5'
11571 3' -55.2 NC_003085.1 + 9050 0.73 0.298549
Target:  5'- cGGcUGCACggGCGGCAGguGUGGugGu -3'
miRNA:   3'- -CCuGCGUGgaCGUCGUCguUACCugC- -5'
11571 3' -55.2 NC_003085.1 + 48688 0.73 0.298549
Target:  5'- uGGGCGCACCguUGC-GCGGCGuggcGGACu -3'
miRNA:   3'- -CCUGCGUGG--ACGuCGUCGUua--CCUGc -5'
11571 3' -55.2 NC_003085.1 + 5264 0.73 0.298549
Target:  5'- cGGGCGCGCg-GCAGUAcGCGAgcacGGGCGa -3'
miRNA:   3'- -CCUGCGUGgaCGUCGU-CGUUa---CCUGC- -5'
11571 3' -55.2 NC_003085.1 + 470 0.73 0.298549
Target:  5'- cGGCGCugUUGCAGguGCccacGGGCGa -3'
miRNA:   3'- cCUGCGugGACGUCguCGuua-CCUGC- -5'
11571 3' -55.2 NC_003085.1 + 18729 0.73 0.316277
Target:  5'- gGGACGCGCCuuccugcgcagcaUGCcgaagccgccgcuggAGCgGGCGAUGGACa -3'
miRNA:   3'- -CCUGCGUGG-------------ACG---------------UCG-UCGUUACCUGc -5'
11571 3' -55.2 NC_003085.1 + 28003 0.72 0.346436
Target:  5'- cGGACGCGUCUGCGucaacGaCGGCuacGUGGACGg -3'
miRNA:   3'- -CCUGCGUGGACGU-----C-GUCGu--UACCUGC- -5'
11571 3' -55.2 NC_003085.1 + 39667 0.71 0.372363
Target:  5'- cGGCGCGCgCgugaGCAGCAGCAGgcgcUGGAgGc -3'
miRNA:   3'- cCUGCGUG-Ga---CGUCGUCGUU----ACCUgC- -5'
11571 3' -55.2 NC_003085.1 + 31368 0.7 0.428034
Target:  5'- cGGGCGCGCCUGCccGC-GCuuaccGGAUGg -3'
miRNA:   3'- -CCUGCGUGGACGu-CGuCGuua--CCUGC- -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.