miRNA display CGI


Results 1 - 20 of 26 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
2629 3' -55.9 NC_001491.2 + 18084 0.66 0.909415
Target:  5'- cAGAAUGUGCaGGgGCuGCCAGUacaAGUc -3'
miRNA:   3'- cUUUUGCACGgCCgCG-CGGUCAg--UCG- -5'
2629 3' -55.9 NC_001491.2 + 2531 0.66 0.909415
Target:  5'- cGAAggUGagcGCCGG-GCGCCAGgccUCGGg -3'
miRNA:   3'- -CUUuuGCa--CGGCCgCGCGGUC---AGUCg -5'
2629 3' -55.9 NC_001491.2 + 95536 0.66 0.903217
Target:  5'- aGAAcuCGUGCgCGcaaugguggacuGCGCGCaCAGcUCGGCu -3'
miRNA:   3'- -CUUuuGCACG-GC------------CGCGCG-GUC-AGUCG- -5'
2629 3' -55.9 NC_001491.2 + 3685 0.66 0.896783
Target:  5'- uGAAGGCGgacgGCCuGgGCGCCcuGGUCcccggAGCg -3'
miRNA:   3'- -CUUUUGCa---CGGcCgCGCGG--UCAG-----UCG- -5'
2629 3' -55.9 NC_001491.2 + 2181 0.67 0.876099
Target:  5'- cGAGACGU-CCGGgGCcCCGGUcCAGUu -3'
miRNA:   3'- cUUUUGCAcGGCCgCGcGGUCA-GUCG- -5'
2629 3' -55.9 NC_001491.2 + 71588 0.67 0.868758
Target:  5'- uAAGAgGcGCUGGCGCacGCCAG-CAGUu -3'
miRNA:   3'- cUUUUgCaCGGCCGCG--CGGUCaGUCG- -5'
2629 3' -55.9 NC_001491.2 + 68539 0.67 0.868758
Target:  5'- -uAGACGUGCUgggGGCGaCGCUGGcaccgacaUCGGCu -3'
miRNA:   3'- cuUUUGCACGG---CCGC-GCGGUC--------AGUCG- -5'
2629 3' -55.9 NC_001491.2 + 119347 0.67 0.85344
Target:  5'- aGGAAcCG-GCUauGGCGCGCguguuGGUCAGCg -3'
miRNA:   3'- -CUUUuGCaCGG--CCGCGCGg----UCAGUCG- -5'
2629 3' -55.9 NC_001491.2 + 144467 0.67 0.845473
Target:  5'- -cGAGCG-GCCGGCGUuugGCCA-UgGGCg -3'
miRNA:   3'- cuUUUGCaCGGCCGCG---CGGUcAgUCG- -5'
2629 3' -55.9 NC_001491.2 + 134861 0.67 0.837312
Target:  5'- ---cAC-UGCaCGGCGCGCUAGUUuuauaGGCu -3'
miRNA:   3'- cuuuUGcACG-GCCGCGCGGUCAG-----UCG- -5'
2629 3' -55.9 NC_001491.2 + 31844 0.68 0.828962
Target:  5'- cGAAGCGgucGCCcucGGC-CGCCGG-CAGCg -3'
miRNA:   3'- cUUUUGCa--CGG---CCGcGCGGUCaGUCG- -5'
2629 3' -55.9 NC_001491.2 + 90046 0.68 0.820431
Target:  5'- ----cCGUGCCGGCGCucuuGCCGuuguGUCcuuGCa -3'
miRNA:   3'- cuuuuGCACGGCCGCG----CGGU----CAGu--CG- -5'
2629 3' -55.9 NC_001491.2 + 4819 0.68 0.793837
Target:  5'- uGGAGcCGgaGCgGGUGCGCCGGgggaagCGGCg -3'
miRNA:   3'- -CUUUuGCa-CGgCCGCGCGGUCa-----GUCG- -5'
2629 3' -55.9 NC_001491.2 + 77361 0.69 0.764016
Target:  5'- cGAGGCGUcuuuguggGCgGGCGCGCCuggcucggguucGUCAGUg -3'
miRNA:   3'- cUUUUGCA--------CGgCCGCGCGGu-----------CAGUCG- -5'
2629 3' -55.9 NC_001491.2 + 81737 0.69 0.756359
Target:  5'- cGGAGCG-GCCGGUG-GCCAcgcgCAGCa -3'
miRNA:   3'- cUUUUGCaCGGCCGCgCGGUca--GUCG- -5'
2629 3' -55.9 NC_001491.2 + 39013 0.69 0.756359
Target:  5'- -cAGACGggggagaagGCCGGCuGCcccaggaccaGCUAGUCGGCg -3'
miRNA:   3'- cuUUUGCa--------CGGCCG-CG----------CGGUCAGUCG- -5'
2629 3' -55.9 NC_001491.2 + 5332 0.7 0.727057
Target:  5'- -----gGUGCCGGgGaCGCCGGcugggCGGCa -3'
miRNA:   3'- cuuuugCACGGCCgC-GCGGUCa----GUCG- -5'
2629 3' -55.9 NC_001491.2 + 69706 0.71 0.625394
Target:  5'- ---cGCGU-CCGGCGCGgCGGUugcCAGCa -3'
miRNA:   3'- cuuuUGCAcGGCCGCGCgGUCA---GUCG- -5'
2629 3' -55.9 NC_001491.2 + 25302 0.72 0.615117
Target:  5'- cGAGGugcCGUGCC-GCGUGCCGGUCGa- -3'
miRNA:   3'- -CUUUu--GCACGGcCGCGCGGUCAGUcg -5'
2629 3' -55.9 NC_001491.2 + 68922 0.72 0.594611
Target:  5'- --cAACGcccGCCGGCGUgGCCGGcaUCAGCu -3'
miRNA:   3'- cuuUUGCa--CGGCCGCG-CGGUC--AGUCG- -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.