miRNA display CGI


Results 1 - 20 of 29 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
8728 3' -40.5 NC_002331.1 + 19652 0.66 1
Target:  5'- ---cGGGUUUUAAUaUCGACCUCAc- -3'
miRNA:   3'- gguaUUUAAAAUUAcAGCUGGGGUuu -5'
8728 3' -40.5 NC_002331.1 + 12315 0.66 1
Target:  5'- uCCGUAGAaa-UGGUGUCGAUuugaCCCGc- -3'
miRNA:   3'- -GGUAUUUaaaAUUACAGCUG----GGGUuu -5'
8728 3' -40.5 NC_002331.1 + 37356 0.66 1
Target:  5'- -gGUAAAaaaUUUAAUGUCGACCUUu-- -3'
miRNA:   3'- ggUAUUUa--AAAUUACAGCUGGGGuuu -5'
8728 3' -40.5 NC_002331.1 + 9917 0.66 1
Target:  5'- aCCAUAucggc-GAUGUUGACCaCUAGAu -3'
miRNA:   3'- -GGUAUuuaaaaUUACAGCUGG-GGUUU- -5'
8728 3' -40.5 NC_002331.1 + 46708 0.66 1
Target:  5'- aCAcuuuUUUUAAUGUCGACCUUu-- -3'
miRNA:   3'- gGUauuuAAAAUUACAGCUGGGGuuu -5'
8728 3' -40.5 NC_002331.1 + 4035 0.67 1
Target:  5'- uCCAUAGc----AAUGUUGuCCCCGAAa -3'
miRNA:   3'- -GGUAUUuaaaaUUACAGCuGGGGUUU- -5'
8728 3' -40.5 NC_002331.1 + 3875 0.67 1
Target:  5'- uCCGUGAAgcUUGcgGUCGuCCgCAAAc -3'
miRNA:   3'- -GGUAUUUaaAAUuaCAGCuGGgGUUU- -5'
8728 3' -40.5 NC_002331.1 + 171739 0.67 1
Target:  5'- uUCAUuuuAUUUUAAUGUCGAUUUCGu- -3'
miRNA:   3'- -GGUAuu-UAAAAUUACAGCUGGGGUuu -5'
8728 3' -40.5 NC_002331.1 + 69152 0.68 1
Target:  5'- aUAUGAcaauauUUUUAAUGUCGAucuuuuuCCCCGGAa -3'
miRNA:   3'- gGUAUUu-----AAAAUUACAGCU-------GGGGUUU- -5'
8728 3' -40.5 NC_002331.1 + 69201 0.68 1
Target:  5'- aCUGUuuuUUUUAAUGUCGAUUUCAAAa -3'
miRNA:   3'- -GGUAuuuAAAAUUACAGCUGGGGUUU- -5'
8728 3' -40.5 NC_002331.1 + 69412 0.68 1
Target:  5'- gCGauAAUUUUAAUGUCGAucuuuucgccUCCCGGAg -3'
miRNA:   3'- gGUauUUAAAAUUACAGCU----------GGGGUUU- -5'
8728 3' -40.5 NC_002331.1 + 69077 0.68 1
Target:  5'- aCUGUuu-UUUUAAUGUCGAUUUCAAAa -3'
miRNA:   3'- -GGUAuuuAAAAUUACAGCUGGGGUUU- -5'
8728 3' -40.5 NC_002331.1 + 69537 0.69 1
Target:  5'- aCUAU---UUUUAAUGUCGACCuuuuuuCCAGAg -3'
miRNA:   3'- -GGUAuuuAAAAUUACAGCUGG------GGUUU- -5'
8728 3' -40.5 NC_002331.1 + 146429 0.69 1
Target:  5'- uCUggAAAUUUUAAUGUCGAUUUCAu- -3'
miRNA:   3'- -GGuaUUUAAAAUUACAGCUGGGGUuu -5'
8728 3' -40.5 NC_002331.1 + 37609 0.7 1
Target:  5'- aCAUu--UUUUAAUGUCGACCUUu-- -3'
miRNA:   3'- gGUAuuuAAAAUUACAGCUGGGGuuu -5'
8728 3' -40.5 NC_002331.1 + 84311 0.7 1
Target:  5'- --------aUUAGUGUCGACCaCCGAu -3'
miRNA:   3'- gguauuuaaAAUUACAGCUGG-GGUUu -5'
8728 3' -40.5 NC_002331.1 + 146516 0.7 1
Target:  5'- aCAUu--UUUUAAUGUCGACCUUu-- -3'
miRNA:   3'- gGUAuuuAAAAUUACAGCUGGGGuuu -5'
8728 3' -40.5 NC_002331.1 + 162612 0.71 1
Target:  5'- ---aAAAUUUUAAUGUCGAUUUCGAu -3'
miRNA:   3'- gguaUUUAAAAUUACAGCUGGGGUUu -5'
8728 3' -40.5 NC_002331.1 + 146387 0.71 1
Target:  5'- uCCAcAuuUUUUAAUGUCGACCUuuUAGAg -3'
miRNA:   3'- -GGUaUuuAAAAUUACAGCUGGG--GUUU- -5'
8728 3' -40.5 NC_002331.1 + 167702 0.72 0.999997
Target:  5'- cCCAUGAccacUUGAUGU-GACCCCAu- -3'
miRNA:   3'- -GGUAUUuaa-AAUUACAgCUGGGGUuu -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.