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
7219 5' -54.7 NC_001900.1 + 39907 0.66 0.735626
Target:  5'- -cUGuCCGGGGAG-CgGGCUGuCAUCGGa -3'
miRNA:   3'- cuGC-GGCCCUUCuGgCUGAU-GUAGCU- -5'
7219 5' -54.7 NC_001900.1 + 17162 0.67 0.681646
Target:  5'- -cCGCCGaGGAGACCGAgCgguucCGUCGAg -3'
miRNA:   3'- cuGCGGCcCUUCUGGCU-Gau---GUAGCU- -5'
7219 5' -54.7 NC_001900.1 + 7181 0.67 0.670661
Target:  5'- gGugGCCGGGAcuccgugguAGcCCaGCU-CAUCGAg -3'
miRNA:   3'- -CugCGGCCCU---------UCuGGcUGAuGUAGCU- -5'
7219 5' -54.7 NC_001900.1 + 19801 0.67 0.648593
Target:  5'- aGACGCCGGGGuuGAUCuacggcgagaACUGCAUCa- -3'
miRNA:   3'- -CUGCGGCCCUu-CUGGc---------UGAUGUAGcu -5'
7219 5' -54.7 NC_001900.1 + 23185 0.68 0.626464
Target:  5'- aGugGCCGGGGAGGuguUCGAgcaCUACcgCGu -3'
miRNA:   3'- -CugCGGCCCUUCU---GGCU---GAUGuaGCu -5'
7219 5' -54.7 NC_001900.1 + 9019 0.68 0.626464
Target:  5'- --aGCuCGGGGAGGCCguGACcgACAUCGu -3'
miRNA:   3'- cugCG-GCCCUUCUGG--CUGa-UGUAGCu -5'
7219 5' -54.7 NC_001900.1 + 2221 0.68 0.604354
Target:  5'- gGugGCUGGGAGGGCCuggagauccuuGAgUAC-UCGGg -3'
miRNA:   3'- -CugCGGCCCUUCUGG-----------CUgAUGuAGCU- -5'
7219 5' -54.7 NC_001900.1 + 5972 0.68 0.604354
Target:  5'- cGGCGaCGGcauGGGGCCGcccGCUACGUCGAg -3'
miRNA:   3'- -CUGCgGCCc--UUCUGGC---UGAUGUAGCU- -5'
7219 5' -54.7 NC_001900.1 + 30855 0.71 0.436157
Target:  5'- -uUGCCGGGGAGcuguCCGACgaaGUCGGa -3'
miRNA:   3'- cuGCGGCCCUUCu---GGCUGaugUAGCU- -5'
7219 5' -54.7 NC_001900.1 + 30024 0.72 0.380194
Target:  5'- uGCGCCGGGAugccaguGAUCGACaUGCG-CGAg -3'
miRNA:   3'- cUGCGGCCCUu------CUGGCUG-AUGUaGCU- -5'
7219 5' -54.7 NC_001900.1 + 43036 0.72 0.380194
Target:  5'- gGACaGCCGGGGAGcgucCCGG-UACAUCGGg -3'
miRNA:   3'- -CUG-CGGCCCUUCu---GGCUgAUGUAGCU- -5'
7219 5' -54.7 NC_001900.1 + 2419 0.73 0.354071
Target:  5'- aGACGuUCGGGGucGGCCGACgagACAUCGc -3'
miRNA:   3'- -CUGC-GGCCCUu-CUGGCUGa--UGUAGCu -5'
7219 5' -54.7 NC_001900.1 + 29003 0.74 0.298173
Target:  5'- --aGCCGGG-AGGCCGACcuucggggACAUCGGc -3'
miRNA:   3'- cugCGGCCCuUCUGGCUGa-------UGUAGCU- -5'
7219 5' -54.7 NC_001900.1 + 41443 0.76 0.212947
Target:  5'- cGAUGuCCGGGAGGAUgGACUGCGgcUUGAa -3'
miRNA:   3'- -CUGC-GGCCCUUCUGgCUGAUGU--AGCU- -5'
7219 5' -54.7 NC_001900.1 + 16331 0.78 0.158014
Target:  5'- --aGCUGGGcAGGcACCGACUACGUCGGu -3'
miRNA:   3'- cugCGGCCC-UUC-UGGCUGAUGUAGCU- -5'
7219 5' -54.7 NC_001900.1 + 14745 1.09 0.001131
Target:  5'- cGACGCCGGGAAGACCGACUACAUCGAc -3'
miRNA:   3'- -CUGCGGCCCUUCUGGCUGAUGUAGCU- -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.