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
18797 3' -59.7 NC_004683.1 + 34116 0.66 0.513509
Target:  5'- cGUGCUgGuCGCGUaGCGUGCGccacggaugccaaaaGCCCUCg -3'
miRNA:   3'- -CGCGAgU-GCGCA-UGCGCGCc--------------UGGGAG- -5'
18797 3' -59.7 NC_004683.1 + 22726 0.66 0.512499
Target:  5'- gGCGCaCGCGCGUcgAUGgGCGG-CCUg- -3'
miRNA:   3'- -CGCGaGUGCGCA--UGCgCGCCuGGGag -5'
18797 3' -59.7 NC_004683.1 + 40563 0.66 0.512499
Target:  5'- gGCGCUCACccccucggcgGUGUgcACGCGCcGACaCUCu -3'
miRNA:   3'- -CGCGAGUG----------CGCA--UGCGCGcCUGgGAG- -5'
18797 3' -59.7 NC_004683.1 + 10603 0.66 0.492476
Target:  5'- cGCGC-CGCGCugagGUGCGgGCGG-UCCg- -3'
miRNA:   3'- -CGCGaGUGCG----CAUGCgCGCCuGGGag -5'
18797 3' -59.7 NC_004683.1 + 55981 0.67 0.471848
Target:  5'- uGCGCUCguuggccuugaauACgGUGgcgACGCGCGG-CCCg- -3'
miRNA:   3'- -CGCGAG-------------UG-CGCa--UGCGCGCCuGGGag -5'
18797 3' -59.7 NC_004683.1 + 54429 0.67 0.453569
Target:  5'- cGUGCUCAC-CGguaACGCcgaacaGUGGACCgUCa -3'
miRNA:   3'- -CGCGAGUGcGCa--UGCG------CGCCUGGgAG- -5'
18797 3' -59.7 NC_004683.1 + 40400 0.67 0.453569
Target:  5'- uCGCUCAuCGgGUcacCGcCGCGGcgauGCCCUCg -3'
miRNA:   3'- cGCGAGU-GCgCAu--GC-GCGCC----UGGGAG- -5'
18797 3' -59.7 NC_004683.1 + 28841 0.67 0.444104
Target:  5'- uGCGCuUCACugagcCGUugGCaCaGACCCUCa -3'
miRNA:   3'- -CGCG-AGUGc----GCAugCGcGcCUGGGAG- -5'
18797 3' -59.7 NC_004683.1 + 44721 0.67 0.444104
Target:  5'- gGCGCUCAUGCGU-----UGGGCCCgUCg -3'
miRNA:   3'- -CGCGAGUGCGCAugcgcGCCUGGG-AG- -5'
18797 3' -59.7 NC_004683.1 + 50486 0.68 0.416393
Target:  5'- gGCGCUCGgagcggauCGCGUcgguuucaugggACGCGCGGcuggugcuaaagGgCCUCg -3'
miRNA:   3'- -CGCGAGU--------GCGCA------------UGCGCGCC------------UgGGAG- -5'
18797 3' -59.7 NC_004683.1 + 54106 0.68 0.416393
Target:  5'- gGUGCaauGCGUGUGCG-GCGuGACCCUg -3'
miRNA:   3'- -CGCGag-UGCGCAUGCgCGC-CUGGGAg -5'
18797 3' -59.7 NC_004683.1 + 45551 0.68 0.384574
Target:  5'- gGCGCgUCGCGCGcgagaagugcugcgGCgGUGCGGACCUc- -3'
miRNA:   3'- -CGCG-AGUGCGCa-------------UG-CGCGCCUGGGag -5'
18797 3' -59.7 NC_004683.1 + 12104 0.69 0.364276
Target:  5'- -aGCccCGCGCGgGCGCGCuGGCCCg- -3'
miRNA:   3'- cgCGa-GUGCGCaUGCGCGcCUGGGag -5'
18797 3' -59.7 NC_004683.1 + 43679 0.69 0.35604
Target:  5'- cGCaGCUgGCGCGUGCaGUGCccaaggguauGGACCC-Cg -3'
miRNA:   3'- -CG-CGAgUGCGCAUG-CGCG----------CCUGGGaG- -5'
18797 3' -59.7 NC_004683.1 + 4047 0.69 0.347936
Target:  5'- cGCGCUaccaCGUGCGCGCc-GCCCUCg -3'
miRNA:   3'- -CGCGAgugcGCAUGCGCGccUGGGAG- -5'
18797 3' -59.7 NC_004683.1 + 40061 0.69 0.347936
Target:  5'- uGUGCUgcaACGCGUcgACGCGCuguucgcccGGGCCCa- -3'
miRNA:   3'- -CGCGAg--UGCGCA--UGCGCG---------CCUGGGag -5'
18797 3' -59.7 NC_004683.1 + 44336 0.69 0.339964
Target:  5'- gGCGCUCGCGC-UGC-CGUcGACCgUCa -3'
miRNA:   3'- -CGCGAGUGCGcAUGcGCGcCUGGgAG- -5'
18797 3' -59.7 NC_004683.1 + 26965 0.69 0.332126
Target:  5'- cGCGCgUACGCGUGaGCGCcGGGCaggccggccaCCUCg -3'
miRNA:   3'- -CGCGaGUGCGCAUgCGCG-CCUG----------GGAG- -5'
18797 3' -59.7 NC_004683.1 + 24782 0.7 0.309413
Target:  5'- uGCGgUCGCgGCG-GCGCGCGGccauGgCCUCg -3'
miRNA:   3'- -CGCgAGUG-CGCaUGCGCGCC----UgGGAG- -5'
18797 3' -59.7 NC_004683.1 + 37966 0.7 0.309413
Target:  5'- aCGCUC-CGCGUuggGCGCcaGCGG-CCCUg -3'
miRNA:   3'- cGCGAGuGCGCA---UGCG--CGCCuGGGAg -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.