miRNA display CGI


Results 1 - 20 of 160 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
28883 5' -63.5 NC_006146.1 + 14676 0.77 0.142082
Target:  5'- -uCAGGGCCCagGGGGGUUCGcguuGCCAGGc -3'
miRNA:   3'- cuGUCCUGGGg-CCCCCGAGU----CGGUCC- -5'
28883 5' -63.5 NC_006146.1 + 49521 0.72 0.273581
Target:  5'- cGGCGGGugaUCCGGGGGCUCcuCUGGGg -3'
miRNA:   3'- -CUGUCCug-GGGCCCCCGAGucGGUCC- -5'
28883 5' -63.5 NC_006146.1 + 114221 0.72 0.285991
Target:  5'- aGCAGGgccaGCCCCaGGGGGCcCGGCaccuCAGGg -3'
miRNA:   3'- cUGUCC----UGGGG-CCCCCGaGUCG----GUCC- -5'
28883 5' -63.5 NC_006146.1 + 45527 0.65 0.636517
Target:  5'- gGugGGGGCCUgGGccuccuuGGGCUUGGCCGc- -3'
miRNA:   3'- -CugUCCUGGGgCC-------CCCGAGUCGGUcc -5'
28883 5' -63.5 NC_006146.1 + 26987 0.77 0.142082
Target:  5'- -uCAGGGCCCagGGGGGUUCGcguuGCCAGGc -3'
miRNA:   3'- cuGUCCUGGGg-CCCCCGAGU----CGGUCC- -5'
28883 5' -63.5 NC_006146.1 + 3722 0.76 0.152788
Target:  5'- aGACAGGGuCUCUGGGGGCcgcguggcccuUCAGcCCGGGg -3'
miRNA:   3'- -CUGUCCU-GGGGCCCCCG-----------AGUC-GGUCC- -5'
28883 5' -63.5 NC_006146.1 + 53637 0.75 0.184991
Target:  5'- cGGCAGGAUCgC-GGGGCUCAGUCAGc -3'
miRNA:   3'- -CUGUCCUGGgGcCCCCGAGUCGGUCc -5'
28883 5' -63.5 NC_006146.1 + 167408 0.75 0.184991
Target:  5'- -cCGGGGCCUggCGGGGGC-CAGCgCGGGg -3'
miRNA:   3'- cuGUCCUGGG--GCCCCCGaGUCG-GUCC- -5'
28883 5' -63.5 NC_006146.1 + 170203 0.75 0.184991
Target:  5'- -cCGGGGCCUggCGGGGGC-CAGCgCGGGg -3'
miRNA:   3'- cuGUCCUGGG--GCCCCCGaGUCG-GUCC- -5'
28883 5' -63.5 NC_006146.1 + 156721 0.73 0.244449
Target:  5'- -cCAGG-CUCCGGGGGUcCAGCCuGGc -3'
miRNA:   3'- cuGUCCuGGGGCCCCCGaGUCGGuCC- -5'
28883 5' -63.5 NC_006146.1 + 137972 0.74 0.212943
Target:  5'- cGGCcGGGCcuCCCGGGGGCcCGGCgGGGu -3'
miRNA:   3'- -CUGuCCUG--GGGCCCCCGaGUCGgUCC- -5'
28883 5' -63.5 NC_006146.1 + 169272 0.75 0.184991
Target:  5'- -cCGGGGCCUggCGGGGGC-CAGCgCGGGg -3'
miRNA:   3'- cuGUCCUGGG--GCCCCCGaGUCG-GUCC- -5'
28883 5' -63.5 NC_006146.1 + 17754 0.77 0.142082
Target:  5'- -uCAGGGCCCagGGGGGUUCGcguuGCCAGGc -3'
miRNA:   3'- cuGUCCUGGGg-CCCCCGAGU----CGGUCC- -5'
28883 5' -63.5 NC_006146.1 + 48580 0.74 0.217941
Target:  5'- -cCGGGGCCUCGGGGGUcagggaGGCCAGa -3'
miRNA:   3'- cuGUCCUGGGGCCCCCGag----UCGGUCc -5'
28883 5' -63.5 NC_006146.1 + 20832 0.77 0.142082
Target:  5'- -uCAGGGCCCagGGGGGUUCGcguuGCCAGGc -3'
miRNA:   3'- cuGUCCUGGGg-CCCCCGAGU----CGGUCC- -5'
28883 5' -63.5 NC_006146.1 + 168340 0.75 0.184991
Target:  5'- -cCGGGGCCUggCGGGGGC-CAGCgCGGGg -3'
miRNA:   3'- cuGUCCUGGG--GCCCCCGaGUCG-GUCC- -5'
28883 5' -63.5 NC_006146.1 + 57342 0.74 0.223038
Target:  5'- gGGCGGGGCCCCGGGuG-UCGGUgAGGg -3'
miRNA:   3'- -CUGUCCUGGGGCCCcCgAGUCGgUCC- -5'
28883 5' -63.5 NC_006146.1 + 54601 0.72 0.285991
Target:  5'- gGAgAGGACCgCGGGGGCgccaucCGGCCGc- -3'
miRNA:   3'- -CUgUCCUGGgGCCCCCGa-----GUCGGUcc -5'
28883 5' -63.5 NC_006146.1 + 23910 0.77 0.142082
Target:  5'- -uCAGGGCCCagGGGGGUUCGcguuGCCAGGc -3'
miRNA:   3'- cuGUCCUGGGg-CCCCCGAGU----CGGUCC- -5'
28883 5' -63.5 NC_006146.1 + 149821 0.75 0.176418
Target:  5'- aACAGG-CUCCGGGuGGUgugggCGGCCAGGg -3'
miRNA:   3'- cUGUCCuGGGGCCC-CCGa----GUCGGUCC- -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.