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
13118 3' -59.5 NC_003401.1 + 21309 0.66 0.748685
Target:  5'- uCGCcCuCGCggCGGUCCCCGAAGcCCu -3'
miRNA:   3'- -GCGcG-GUGuaGUCGGGGGCUUCuGGc -5'
13118 3' -59.5 NC_003401.1 + 122946 0.67 0.660563
Target:  5'- aGCgGgCACGgugguUCAGCCCCCGuucGCCGg -3'
miRNA:   3'- gCG-CgGUGU-----AGUCGGGGGCuucUGGC- -5'
13118 3' -59.5 NC_003401.1 + 123369 0.67 0.660563
Target:  5'- --gGCCGCGgcgCGGCCCCUGGAccCCGu -3'
miRNA:   3'- gcgCGGUGUa--GUCGGGGGCUUcuGGC- -5'
13118 3' -59.5 NC_003401.1 + 132514 0.67 0.670553
Target:  5'- gGCGCCGCGcCccgacGCCCCCcGGGcCCGg -3'
miRNA:   3'- gCGCGGUGUaGu----CGGGGGcUUCuGGC- -5'
13118 3' -59.5 NC_003401.1 + 17503 0.67 0.670553
Target:  5'- aCGCGgCGCGcgUGGCCCCCGGguucgugcuGGACUc -3'
miRNA:   3'- -GCGCgGUGUa-GUCGGGGGCU---------UCUGGc -5'
13118 3' -59.5 NC_003401.1 + 71668 0.67 0.690434
Target:  5'- aGcCGCCugGgaCAGCa-CCGAGGGCCGa -3'
miRNA:   3'- gC-GCGGugUa-GUCGggGGCUUCUGGC- -5'
13118 3' -59.5 NC_003401.1 + 82603 0.66 0.719884
Target:  5'- gGCG-CAUAUguGCCCuuGAGGGCg- -3'
miRNA:   3'- gCGCgGUGUAguCGGGggCUUCUGgc -5'
13118 3' -59.5 NC_003401.1 + 119122 0.66 0.729568
Target:  5'- --gGCCACGUC-GCgCCUGGAGACgGc -3'
miRNA:   3'- gcgCGGUGUAGuCGgGGGCUUCUGgC- -5'
13118 3' -59.5 NC_003401.1 + 23327 0.66 0.739171
Target:  5'- cCGCcCUGCAccCGGCuCCCCGAGGucACCGa -3'
miRNA:   3'- -GCGcGGUGUa-GUCG-GGGGCUUC--UGGC- -5'
13118 3' -59.5 NC_003401.1 + 132384 0.68 0.639522
Target:  5'- cCGCGCCGCGcgccgggccgcuuUCGGUUCgCGggG-CCGg -3'
miRNA:   3'- -GCGCGGUGU-------------AGUCGGGgGCuuCuGGC- -5'
13118 3' -59.5 NC_003401.1 + 42999 0.68 0.620462
Target:  5'- gGCGUCGCAgCAGggcuCCCUCGGAGACg- -3'
miRNA:   3'- gCGCGGUGUaGUC----GGGGGCUUCUGgc -5'
13118 3' -59.5 NC_003401.1 + 74000 0.68 0.61044
Target:  5'- -cCGCCACAcUCaaAGCCaaaccgaaCCGGAGACCGc -3'
miRNA:   3'- gcGCGGUGU-AG--UCGGg-------GGCUUCUGGC- -5'
13118 3' -59.5 NC_003401.1 + 76764 0.76 0.235766
Target:  5'- -cUGCUACAUCAcGCCCCUGGAGACUc -3'
miRNA:   3'- gcGCGGUGUAGU-CGGGGGCUUCUGGc -5'
13118 3' -59.5 NC_003401.1 + 123294 0.72 0.412393
Target:  5'- uCGCuGCaacguaACGUCGGUggaCCCCGAAGACCu -3'
miRNA:   3'- -GCG-CGg-----UGUAGUCG---GGGGCUUCUGGc -5'
13118 3' -59.5 NC_003401.1 + 132556 0.71 0.465393
Target:  5'- cCGCGgCGCG-CGGCUCCCGAu-GCCGg -3'
miRNA:   3'- -GCGCgGUGUaGUCGGGGGCUucUGGC- -5'
13118 3' -59.5 NC_003401.1 + 9319 0.7 0.492247
Target:  5'- -uCGCCACcgcuuccuGUCAGcCCCCCGAGGAacagcuaCCGa -3'
miRNA:   3'- gcGCGGUG--------UAGUC-GGGGGCUUCU-------GGC- -5'
13118 3' -59.5 NC_003401.1 + 69703 0.7 0.50262
Target:  5'- gGCGCCGCAaCAGUaaaccacccuuUCCCG-GGACCGu -3'
miRNA:   3'- gCGCGGUGUaGUCG-----------GGGGCuUCUGGC- -5'
13118 3' -59.5 NC_003401.1 + 17957 0.69 0.550866
Target:  5'- gGCGCaaaggaaauCAUCuacGCUCCCGggGACCc -3'
miRNA:   3'- gCGCGgu-------GUAGu--CGGGGGCuuCUGGc -5'
13118 3' -59.5 NC_003401.1 + 18565 0.69 0.550866
Target:  5'- -aCGCCACGguaCAGCuCCCUGGuguGGGCCGc -3'
miRNA:   3'- gcGCGGUGUa--GUCG-GGGGCU---UCUGGC- -5'
13118 3' -59.5 NC_003401.1 + 118729 0.69 0.590449
Target:  5'- cCGCGCCGCuuggCGGCgcggcuuccuCCCCcAAGACCc -3'
miRNA:   3'- -GCGCGGUGua--GUCG----------GGGGcUUCUGGc -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.