miRNA display CGI


Results 1 - 17 of 17 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
28099 5' -57.8 NC_005887.1 + 34967 0.66 0.544565
Target:  5'- gUCGUCgGCGAGCugaaCGCGGcguuGUCGUc- -3'
miRNA:   3'- gAGCAGgUGCUCGc---GCGCC----UAGCAca -5'
28099 5' -57.8 NC_005887.1 + 13948 0.66 0.544565
Target:  5'- uUCGUCacggacaagACGGGCGCGCGGucaCG-GUg -3'
miRNA:   3'- gAGCAGg--------UGCUCGCGCGCCua-GCaCA- -5'
28099 5' -57.8 NC_005887.1 + 40474 0.66 0.544565
Target:  5'- -gCGUCgACGAGCucgauuacgagGCGUGGcgcgacGUCGUGUu -3'
miRNA:   3'- gaGCAGgUGCUCG-----------CGCGCC------UAGCACA- -5'
28099 5' -57.8 NC_005887.1 + 11550 0.67 0.48208
Target:  5'- gCUCGg-CGCGcAGCGCGCGGcgGUCGcGg -3'
miRNA:   3'- -GAGCagGUGC-UCGCGCGCC--UAGCaCa -5'
28099 5' -57.8 NC_005887.1 + 7434 0.67 0.471996
Target:  5'- cCUCGUUuggCGCuGGCGUGCGcGUCGUGa -3'
miRNA:   3'- -GAGCAG---GUGcUCGCGCGCcUAGCACa -5'
28099 5' -57.8 NC_005887.1 + 6013 0.67 0.470993
Target:  5'- cCUCGUCgGCcuauaccuggaucGAGUGCGCGGcGUCGa-- -3'
miRNA:   3'- -GAGCAGgUG-------------CUCGCGCGCC-UAGCaca -5'
28099 5' -57.8 NC_005887.1 + 28282 0.67 0.432777
Target:  5'- aUCGgcaCGcCGAGCGCGCGcagcGUCGUGg -3'
miRNA:   3'- gAGCag-GU-GCUCGCGCGCc---UAGCACa -5'
28099 5' -57.8 NC_005887.1 + 7015 0.68 0.423271
Target:  5'- gCUCGUggccggccgCCGCG-GCGCGCGGca-GUGg -3'
miRNA:   3'- -GAGCA---------GGUGCuCGCGCGCCuagCACa -5'
28099 5' -57.8 NC_005887.1 + 36968 0.68 0.413892
Target:  5'- gUCGUCUcgGCGu-CGCGCGGGUCGa-- -3'
miRNA:   3'- gAGCAGG--UGCucGCGCGCCUAGCaca -5'
28099 5' -57.8 NC_005887.1 + 19164 0.68 0.395523
Target:  5'- aCUCGgcaccgauuauUCCGUGAGCgGCGCGGG-CGUGg -3'
miRNA:   3'- -GAGC-----------AGGUGCUCG-CGCGCCUaGCACa -5'
28099 5' -57.8 NC_005887.1 + 29557 0.69 0.368977
Target:  5'- cCUCGUUCACGAGggucaGCGCcuGAUUGUGc -3'
miRNA:   3'- -GAGCAGGUGCUCg----CGCGc-CUAGCACa -5'
28099 5' -57.8 NC_005887.1 + 27135 0.69 0.363817
Target:  5'- aCUCGUCgGCGAucacgcggccgaacgGCcacggGCGCGGGUUGUGc -3'
miRNA:   3'- -GAGCAGgUGCU---------------CG-----CGCGCCUAGCACa -5'
28099 5' -57.8 NC_005887.1 + 33467 0.69 0.360404
Target:  5'- --gGUCCGCGAGCGCGUacGGcGUCGcGa -3'
miRNA:   3'- gagCAGGUGCUCGCGCG--CC-UAGCaCa -5'
28099 5' -57.8 NC_005887.1 + 1137 0.7 0.296907
Target:  5'- gCUCGgUCACGGGCacgacgacGCGCGGGUCGg-- -3'
miRNA:   3'- -GAGCaGGUGCUCG--------CGCGCCUAGCaca -5'
28099 5' -57.8 NC_005887.1 + 38384 0.73 0.21281
Target:  5'- cCUCGUUCGCGAGCaacgGCGGGUCGa-- -3'
miRNA:   3'- -GAGCAGGUGCUCGcg--CGCCUAGCaca -5'
28099 5' -57.8 NC_005887.1 + 991 0.73 0.21281
Target:  5'- gCUCGaacgcuUCCcgGCG-GCGCGCGGAUCGUa- -3'
miRNA:   3'- -GAGC------AGG--UGCuCGCGCGCCUAGCAca -5'
28099 5' -57.8 NC_005887.1 + 1272 1.07 0.000682
Target:  5'- cCUCGUCCACGAGCGCGCGGAUCGUGUc -3'
miRNA:   3'- -GAGCAGGUGCUCGCGCGCCUAGCACA- -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.