miRNA display CGI


Results 1 - 16 of 16 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
12413 3' -57.1 NC_003324.1 + 51296 0.66 0.620826
Target:  5'- -aUCgCGCCGGaguaaaGCAuggGGAUGUCgCGCa -3'
miRNA:   3'- aaAG-GCGGCCac----CGU---UCUACAGgGCG- -5'
12413 3' -57.1 NC_003324.1 + 18523 0.66 0.620826
Target:  5'- --cCCGaCCGGcGGCAAG--GUCgCGCa -3'
miRNA:   3'- aaaGGC-GGCCaCCGUUCuaCAGgGCG- -5'
12413 3' -57.1 NC_003324.1 + 20785 0.66 0.588134
Target:  5'- --aCCGCCGGaacguUGGCGAGgcGgcggaCCGUg -3'
miRNA:   3'- aaaGGCGGCC-----ACCGUUCuaCag---GGCG- -5'
12413 3' -57.1 NC_003324.1 + 50285 0.67 0.570817
Target:  5'- --gCCGCCGGUcgacGGCAAGAaggcguucaccauaGUCCCu- -3'
miRNA:   3'- aaaGGCGGCCA----CCGUUCUa-------------CAGGGcg -5'
12413 3' -57.1 NC_003324.1 + 29940 0.67 0.566506
Target:  5'- --aCgGuCCGGacgGGCGAGGggcGUCCUGCg -3'
miRNA:   3'- aaaGgC-GGCCa--CCGUUCUa--CAGGGCG- -5'
12413 3' -57.1 NC_003324.1 + 43104 0.67 0.540835
Target:  5'- -aUCCGCCaGcgGGCAuaaugccaaaGUCCCGCa -3'
miRNA:   3'- aaAGGCGGcCa-CCGUucua------CAGGGCG- -5'
12413 3' -57.1 NC_003324.1 + 24777 0.67 0.528145
Target:  5'- -gUCgGCgaguggaagggcaaGGaUGGCAAGGcUGUCCCGCu -3'
miRNA:   3'- aaAGgCGg-------------CC-ACCGUUCU-ACAGGGCG- -5'
12413 3' -57.1 NC_003324.1 + 43173 0.67 0.519746
Target:  5'- --cCCGCUGGcggaUGGCGAGAcgacauucucggcGUCCUGCc -3'
miRNA:   3'- aaaGGCGGCC----ACCGUUCUa------------CAGGGCG- -5'
12413 3' -57.1 NC_003324.1 + 2599 0.67 0.513481
Target:  5'- -gUUCGUCGGUGGCGucacGGcuuacuaucUGUCgCCGCu -3'
miRNA:   3'- aaAGGCGGCCACCGUu---CU---------ACAG-GGCG- -5'
12413 3' -57.1 NC_003324.1 + 54445 0.68 0.472571
Target:  5'- -gUCauaGCCGGcGGCGAGAgcggaaagcuUG-CCCGCc -3'
miRNA:   3'- aaAGg--CGGCCaCCGUUCU----------ACaGGGCG- -5'
12413 3' -57.1 NC_003324.1 + 33462 0.71 0.328125
Target:  5'- -cUCCGCCaGUGGCcGGA-GUUgCGCg -3'
miRNA:   3'- aaAGGCGGcCACCGuUCUaCAGgGCG- -5'
12413 3' -57.1 NC_003324.1 + 27810 0.72 0.297505
Target:  5'- cUUCgCGCCGaaGUGGUucGGUG-CCCGCg -3'
miRNA:   3'- aAAG-GCGGC--CACCGuuCUACaGGGCG- -5'
12413 3' -57.1 NC_003324.1 + 36662 0.73 0.249343
Target:  5'- --gCCGCCGGagauGCGAGAUGUCuuGUc -3'
miRNA:   3'- aaaGGCGGCCac--CGUUCUACAGggCG- -5'
12413 3' -57.1 NC_003324.1 + 34594 0.73 0.230756
Target:  5'- aUUCCGCUGGcGGCAAGAagGaCCCGa -3'
miRNA:   3'- aAAGGCGGCCaCCGUUCUa-CaGGGCg -5'
12413 3' -57.1 NC_003324.1 + 27276 0.76 0.150479
Target:  5'- cUUCCGCguUGGUGGCGcGGAUuUCCCGCc -3'
miRNA:   3'- aAAGGCG--GCCACCGU-UCUAcAGGGCG- -5'
12413 3' -57.1 NC_003324.1 + 4283 1.1 0.000559
Target:  5'- gUUUCCGCCGGUGGCAAGAUGUCCCGCa -3'
miRNA:   3'- -AAAGGCGGCCACCGUUCUACAGGGCG- -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.