miRNA display CGI


Results 1 - 20 of 40 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
11603 3' -57.9 NC_003085.1 + 48829 0.75 0.138758
Target:  5'- gCGCCUCgACGaGGUCC-GCGCCAGCCUc -3'
miRNA:   3'- -GUGGAG-UGUgUCAGGcCGCGGUUGGA- -5'
11603 3' -57.9 NC_003085.1 + 48415 0.7 0.313355
Target:  5'- aGCCacgCGgGCAGUUCGGCGCCuuCUg -3'
miRNA:   3'- gUGGa--GUgUGUCAGGCCGCGGuuGGa -5'
11603 3' -57.9 NC_003085.1 + 43885 0.66 0.5161
Target:  5'- gCACCagggcguagacguggCGCACcGUCgCGGCGCCAGgCCc -3'
miRNA:   3'- -GUGGa--------------GUGUGuCAG-GCCGCGGUU-GGa -5'
11603 3' -57.9 NC_003085.1 + 43503 0.69 0.379381
Target:  5'- cCGCCUCcaGCAGcCCGGCGUgGACg- -3'
miRNA:   3'- -GUGGAGugUGUCaGGCCGCGgUUGga -5'
11603 3' -57.9 NC_003085.1 + 42830 0.79 0.079056
Target:  5'- gCACCUUGCGCucacGUCCGGCGCCGgACUUg -3'
miRNA:   3'- -GUGGAGUGUGu---CAGGCCGCGGU-UGGA- -5'
11603 3' -57.9 NC_003085.1 + 42818 0.71 0.283754
Target:  5'- -gUCUUGCACgGGUCCGGCGCUGGCg- -3'
miRNA:   3'- guGGAGUGUG-UCAGGCCGCGGUUGga -5'
11603 3' -57.9 NC_003085.1 + 41810 0.68 0.415717
Target:  5'- aGgCUCGCGCAugUCGGCGCCGcCCa -3'
miRNA:   3'- gUgGAGUGUGUcaGGCCGCGGUuGGa -5'
11603 3' -57.9 NC_003085.1 + 40835 0.67 0.474007
Target:  5'- gUACCUgACgGCGGcCgGGCugGCCAACCUg -3'
miRNA:   3'- -GUGGAgUG-UGUCaGgCCG--CGGUUGGA- -5'
11603 3' -57.9 NC_003085.1 + 40317 0.69 0.379381
Target:  5'- cUACCUCGC-CGGcaagggCUGGCGCguGCCUc -3'
miRNA:   3'- -GUGGAGUGuGUCa-----GGCCGCGguUGGA- -5'
11603 3' -57.9 NC_003085.1 + 39904 0.68 0.425128
Target:  5'- aCACCcCAUGCAGaagCCaGCGUCGGCCg -3'
miRNA:   3'- -GUGGaGUGUGUCa--GGcCGCGGUUGGa -5'
11603 3' -57.9 NC_003085.1 + 39743 0.68 0.388264
Target:  5'- aCGCCgaggaCACACAGgcguUCCGGCGCU--CCa -3'
miRNA:   3'- -GUGGa----GUGUGUC----AGGCCGCGGuuGGa -5'
11603 3' -57.9 NC_003085.1 + 39377 1.07 0.000682
Target:  5'- cCACCUCACACAGUCCGGCGCCAACCUc -3'
miRNA:   3'- -GUGGAGUGUGUCAGGCCGCGGUUGGA- -5'
11603 3' -57.9 NC_003085.1 + 38136 0.67 0.443354
Target:  5'- cCACCUCGCGggacuucCAGUCCucguccacaaGCGCCAGCg- -3'
miRNA:   3'- -GUGGAGUGU-------GUCAGGc---------CGCGGUUGga -5'
11603 3' -57.9 NC_003085.1 + 38086 0.69 0.362029
Target:  5'- gGCa--GCGCAgguGUCCGGCGCCGccACCa -3'
miRNA:   3'- gUGgagUGUGU---CAGGCCGCGGU--UGGa -5'
11603 3' -57.9 NC_003085.1 + 37625 0.66 0.545692
Target:  5'- gCGCCUCACACAGgguguccUCCGccucaGCGUCGgggcACCc -3'
miRNA:   3'- -GUGGAGUGUGUC-------AGGC-----CGCGGU----UGGa -5'
11603 3' -57.9 NC_003085.1 + 36845 0.71 0.283754
Target:  5'- gCACCUaCACGCuGcCUGGCGgCAACCc -3'
miRNA:   3'- -GUGGA-GUGUGuCaGGCCGCgGUUGGa -5'
11603 3' -57.9 NC_003085.1 + 36674 0.69 0.370636
Target:  5'- -gUCUCACAUAGgCgGGCGCCGgauuccggGCCUg -3'
miRNA:   3'- guGGAGUGUGUCaGgCCGCGGU--------UGGA- -5'
11603 3' -57.9 NC_003085.1 + 35664 0.74 0.163556
Target:  5'- cCACCUcCACGCAGaCUGGCGUCAcgcucGCCUu -3'
miRNA:   3'- -GUGGA-GUGUGUCaGGCCGCGGU-----UGGA- -5'
11603 3' -57.9 NC_003085.1 + 34519 0.69 0.353563
Target:  5'- gCGCUUCGCGCAGuUCCGcgaguuggaGCGCCAcgcgcuggcgGCCg -3'
miRNA:   3'- -GUGGAGUGUGUC-AGGC---------CGCGGU----------UGGa -5'
11603 3' -57.9 NC_003085.1 + 34251 0.66 0.544626
Target:  5'- cCACCUCgcccacuuccgcgGCGCGGcgCUGGCGCaccggcuCAGCCg -3'
miRNA:   3'- -GUGGAG-------------UGUGUCa-GGCCGCG-------GUUGGa -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.