miRNA display CGI


Results 1 - 20 of 49 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
23155 3' -59.4 NC_005178.1 + 2976 0.75 0.092811
Target:  5'- gCCCG-GCCAgcUCCCcggUGgCACGCCCAGGa -3'
miRNA:   3'- -GGGCgCGGU--AGGG---AUgGUGCGGGUUC- -5'
23155 3' -59.4 NC_005178.1 + 23659 0.67 0.342082
Target:  5'- gUCCGCGCUggCCCguUCACGCCgGGc -3'
miRNA:   3'- -GGGCGCGGuaGGGauGGUGCGGgUUc -5'
23155 3' -59.4 NC_005178.1 + 16485 0.69 0.250058
Target:  5'- aUCCGCGCCAUUgCgguuguCCACguauuccucagcgcgGCCCAGGu -3'
miRNA:   3'- -GGGCGCGGUAGgGau----GGUG---------------CGGGUUC- -5'
23155 3' -59.4 NC_005178.1 + 4493 0.69 0.250058
Target:  5'- aCCCGCaguugGCCA--CCUGCCGgaaugcccucggugcCGCCCAGGa -3'
miRNA:   3'- -GGGCG-----CGGUagGGAUGGU---------------GCGGGUUC- -5'
23155 3' -59.4 NC_005178.1 + 27221 0.7 0.217327
Target:  5'- -gCGCGCUucgcCCCU-CCGCGCCCGGc -3'
miRNA:   3'- ggGCGCGGua--GGGAuGGUGCGGGUUc -5'
23155 3' -59.4 NC_005178.1 + 9425 0.7 0.217327
Target:  5'- -gCGcCGCCAUCggUGCCAcCGCCCAGGc -3'
miRNA:   3'- ggGC-GCGGUAGggAUGGU-GCGGGUUC- -5'
23155 3' -59.4 NC_005178.1 + 32267 0.66 0.412112
Target:  5'- gCUCGCGCCggCCCUgaacgguggcgGCCuCGgCCAAc -3'
miRNA:   3'- -GGGCGCGGuaGGGA-----------UGGuGCgGGUUc -5'
23155 3' -59.4 NC_005178.1 + 16872 0.67 0.35876
Target:  5'- gCCG-GCCAagUCCUUggcGCCguauucacGCGCCCAGGg -3'
miRNA:   3'- gGGCgCGGU--AGGGA---UGG--------UGCGGGUUC- -5'
23155 3' -59.4 NC_005178.1 + 27104 0.69 0.274069
Target:  5'- aUCGCGCCA-CCgUACCAgCGCCUu-- -3'
miRNA:   3'- gGGCGCGGUaGGgAUGGU-GCGGGuuc -5'
23155 3' -59.4 NC_005178.1 + 34522 0.7 0.235034
Target:  5'- aCCaggGCGCCAcgCUCgGCCugGUCCAGGa -3'
miRNA:   3'- -GGg--CGCGGUa-GGGaUGGugCGGGUUC- -5'
23155 3' -59.4 NC_005178.1 + 14097 0.74 0.122928
Target:  5'- uUCGCGCCGggcgCCCUgGCCGuCGCCCuGGg -3'
miRNA:   3'- gGGCGCGGUa---GGGA-UGGU-GCGGGuUC- -5'
23155 3' -59.4 NC_005178.1 + 5654 0.66 0.384825
Target:  5'- aCCggcaGCGCCAUCCCgGCgACGUCgGu- -3'
miRNA:   3'- -GGg---CGCGGUAGGGaUGgUGCGGgUuc -5'
23155 3' -59.4 NC_005178.1 + 20870 0.72 0.166371
Target:  5'- gCCUGCGCCGg-CCUGau-CGCCCAGGa -3'
miRNA:   3'- -GGGCGCGGUagGGAUgguGCGGGUUC- -5'
23155 3' -59.4 NC_005178.1 + 17868 0.69 0.253936
Target:  5'- uCCgGCGCCAUCUUcugGCCAaGCCCuGGc -3'
miRNA:   3'- -GGgCGCGGUAGGGa--UGGUgCGGGuUC- -5'
23155 3' -59.4 NC_005178.1 + 3887 0.66 0.384825
Target:  5'- aCCCGa-CCGUCUgUGCCuucgguuuaGCGCCCAu- -3'
miRNA:   3'- -GGGCgcGGUAGGgAUGG---------UGCGGGUuc -5'
23155 3' -59.4 NC_005178.1 + 28645 0.72 0.175622
Target:  5'- gCCGgGCCGaUCCUG-CugGCCCAGGg -3'
miRNA:   3'- gGGCgCGGUaGGGAUgGugCGGGUUC- -5'
23155 3' -59.4 NC_005178.1 + 14185 0.67 0.35876
Target:  5'- gCCCGacuGCCG-CCCUgguGCgACGCCCcGGu -3'
miRNA:   3'- -GGGCg--CGGUaGGGA---UGgUGCGGGuUC- -5'
23155 3' -59.4 NC_005178.1 + 11742 0.68 0.325972
Target:  5'- aCCCGCGCaUAUgCCacgGCCgugGCCCGAGc -3'
miRNA:   3'- -GGGCGCG-GUAgGGa--UGGug-CGGGUUC- -5'
23155 3' -59.4 NC_005178.1 + 28961 0.68 0.295461
Target:  5'- gCCgUGCGCCAggugaCCCUG-CGCGCCCcuGg -3'
miRNA:   3'- -GG-GCGCGGUa----GGGAUgGUGCGGGuuC- -5'
23155 3' -59.4 NC_005178.1 + 23740 0.68 0.288189
Target:  5'- gUCGCGCCgaagccgaGUUCCUGCUGCGCCg--- -3'
miRNA:   3'- gGGCGCGG--------UAGGGAUGGUGCGGguuc -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.