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 + 111680 1.11 0.093469
Target:  5'- gCCAUAAAUUUUAAUGUCGACCCCAAAg -3'
miRNA:   3'- -GGUAUUUAAAAUUACAGCUGGGGUUU- -5'
8728 3' -40.5 NC_002331.1 + 111426 0.85 0.927153
Target:  5'- gCAUuuucUUUAAUGUCGACCCCAAGu -3'
miRNA:   3'- gGUAuuuaAAAUUACAGCUGGGGUUU- -5'
8728 3' -40.5 NC_002331.1 + 171446 0.8 0.994275
Target:  5'- gCCAaAAAUUUUAAUGUCGAUcuuuuuaCCCAAAa -3'
miRNA:   3'- -GGUaUUUAAAAUUACAGCUG-------GGGUUU- -5'
8728 3' -40.5 NC_002331.1 + 171321 0.77 0.999297
Target:  5'- gCUAaAAAUUUUAAUGUCGAucuuuuuCCCCGGAa -3'
miRNA:   3'- -GGUaUUUAAAAUUACAGCU-------GGGGUUU- -5'
8728 3' -40.5 NC_002331.1 + 146628 0.77 0.99944
Target:  5'- uCCAUAugguaaaAAUUUUAAUGUCGACCUUu-- -3'
miRNA:   3'- -GGUAU-------UUAAAAUUACAGCUGGGGuuu -5'
8728 3' -40.5 NC_002331.1 + 146263 0.76 0.999797
Target:  5'- -gGUAAAauUUUUAAUGUCGACCCa--- -3'
miRNA:   3'- ggUAUUU--AAAAUUACAGCUGGGguuu -5'
8728 3' -40.5 NC_002331.1 + 69033 0.74 0.999974
Target:  5'- aCAcuuuUUUUAAUGUCGAUCCCGu- -3'
miRNA:   3'- gGUauuuAAAAUUACAGCUGGGGUuu -5'
8728 3' -40.5 NC_002331.1 + 171571 0.73 0.999994
Target:  5'- gUCAaAAAUUUUAAUGUCGAucuuuucgccUCCCGGAg -3'
miRNA:   3'- -GGUaUUUAAAAUUACAGCU----------GGGGUUU- -5'
8728 3' -40.5 NC_002331.1 + 167702 0.72 0.999997
Target:  5'- cCCAUGAccacUUGAUGU-GACCCCAu- -3'
miRNA:   3'- -GGUAUUuaa-AAUUACAgCUGGGGUuu -5'
8728 3' -40.5 NC_002331.1 + 46297 0.72 0.999998
Target:  5'- uCUggAAAUUUUAAUGUCGAUUUCGGAa -3'
miRNA:   3'- -GGuaUUUAAAAUUACAGCUGGGGUUU- -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 + 69537 0.69 1
Target:  5'- aCUAU---UUUUAAUGUCGACCuuuuuuCCAGAg -3'
miRNA:   3'- -GGUAuuuAAAAUUACAGCUGG------GGUUU- -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 + 146516 0.7 1
Target:  5'- aCAUu--UUUUAAUGUCGACCUUu-- -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 + 146387 0.71 1
Target:  5'- uCCAcAuuUUUUAAUGUCGACCUuuUAGAg -3'
miRNA:   3'- -GGUaUuuAAAAUUACAGCUGGG--GUUU- -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 + 162612 0.71 1
Target:  5'- ---aAAAUUUUAAUGUCGAUUUCGAu -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 + 46708 0.66 1
Target:  5'- aCAcuuuUUUUAAUGUCGACCUUu-- -3'
miRNA:   3'- gGUauuuAAAAUUACAGCUGGGGuuu -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.