miRNA display CGI


Results 1 - 13 of 13 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
10340 3' -52 NC_002687.1 + 160423 0.66 0.99888
Target:  5'- uCCGGGAGGUugUUCucaauGUA-UUCCUc- -3'
miRNA:   3'- -GGUCCUCCAugAAGu----CGUgAAGGAca -5'
10340 3' -52 NC_002687.1 + 166910 0.67 0.99774
Target:  5'- gCAGGGGGUacaacaGCUUCAGCuGCUguacgCCgGg -3'
miRNA:   3'- gGUCCUCCA------UGAAGUCG-UGAa----GGaCa -5'
10340 3' -52 NC_002687.1 + 246261 0.68 0.992544
Target:  5'- uCCAGGGuGcGCUUCAGUGgUUUCUGUg -3'
miRNA:   3'- -GGUCCUcCaUGAAGUCGUgAAGGACA- -5'
10340 3' -52 NC_002687.1 + 150116 0.68 0.992544
Target:  5'- gUAGGAaGUGCUUCAacgccugauGCACUcUCCUGg -3'
miRNA:   3'- gGUCCUcCAUGAAGU---------CGUGA-AGGACa -5'
10340 3' -52 NC_002687.1 + 168770 0.68 0.992544
Target:  5'- cCCGGGAcGGUGCccccggUCGGC---UCCUGUg -3'
miRNA:   3'- -GGUCCU-CCAUGa-----AGUCGugaAGGACA- -5'
10340 3' -52 NC_002687.1 + 319654 0.68 0.992544
Target:  5'- uCCAGGGuGcGCUUCAGUGgUUUCUGUg -3'
miRNA:   3'- -GGUCCUcCaUGAAGUCGUgAAGGACA- -5'
10340 3' -52 NC_002687.1 + 248872 0.69 0.989046
Target:  5'- uCCAGGAGGUGCgc--GUugU-CCUGa -3'
miRNA:   3'- -GGUCCUCCAUGaaguCGugAaGGACa -5'
10340 3' -52 NC_002687.1 + 75837 0.7 0.982537
Target:  5'- aCGGGAGGUGucUCAGUG-UUCCUGa -3'
miRNA:   3'- gGUCCUCCAUgaAGUCGUgAAGGACa -5'
10340 3' -52 NC_002687.1 + 267887 0.7 0.979894
Target:  5'- cUCAGGAGGUGCUU-GGCccgcuucaacuuggGCUuaUCCUGg -3'
miRNA:   3'- -GGUCCUCCAUGAAgUCG--------------UGA--AGGACa -5'
10340 3' -52 NC_002687.1 + 270629 0.7 0.979894
Target:  5'- cUCAGGAGGUGCUU-GGCccgcuucaacuuggGCUuaUCCUGg -3'
miRNA:   3'- -GGUCCUCCAUGAAgUCG--------------UGA--AGGACa -5'
10340 3' -52 NC_002687.1 + 217258 0.7 0.977666
Target:  5'- -uGGGAGGUGCUUCuggacucuuggauuGGCcgACUUUCUGg -3'
miRNA:   3'- ggUCCUCCAUGAAG--------------UCG--UGAAGGACa -5'
10340 3' -52 NC_002687.1 + 150487 0.74 0.88493
Target:  5'- uCCAGGAGaGUGCaUCaggcguugaAGCACUUCCUa- -3'
miRNA:   3'- -GGUCCUC-CAUGaAG---------UCGUGAAGGAca -5'
10340 3' -52 NC_002687.1 + 141696 0.89 0.232802
Target:  5'- cCCAGGAGGUACUUgAcCACUUCCUGUu -3'
miRNA:   3'- -GGUCCUCCAUGAAgUcGUGAAGGACA- -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.