miRNA display CGI


Results 1 - 16 of 16 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
21331 5' -57.5 NC_004778.3 + 27598 0.66 0.805225
Target:  5'- uCAAGcUCGCGCAcGCgccccUCGCgCAGGCa-- -3'
miRNA:   3'- -GUUC-AGCGCGU-CG-----AGCGaGUCCGaca -5'
21331 5' -57.5 NC_004778.3 + 94853 0.66 0.805225
Target:  5'- gGAG-CGCGCAcGCUCGCgguUCAGcGCg-- -3'
miRNA:   3'- gUUCaGCGCGU-CGAGCG---AGUC-CGaca -5'
21331 5' -57.5 NC_004778.3 + 57627 0.67 0.708767
Target:  5'- --cGUCGCGCggcagcggcAGCUUGCcCAGGCa-- -3'
miRNA:   3'- guuCAGCGCG---------UCGAGCGaGUCCGaca -5'
21331 5' -57.5 NC_004778.3 + 73193 0.67 0.708767
Target:  5'- cCGAGUCGCu--GCUCuGaUUCAGGCUGg -3'
miRNA:   3'- -GUUCAGCGcguCGAG-C-GAGUCCGACa -5'
21331 5' -57.5 NC_004778.3 + 108426 0.68 0.688366
Target:  5'- gCAGGUggaCGCGCuGGUgCGCcgCGGGCUGUa -3'
miRNA:   3'- -GUUCA---GCGCG-UCGaGCGa-GUCCGACA- -5'
21331 5' -57.5 NC_004778.3 + 21243 0.68 0.678088
Target:  5'- aAAGcCGUGCAGUcCGCgcggCAGGUUGa -3'
miRNA:   3'- gUUCaGCGCGUCGaGCGa---GUCCGACa -5'
21331 5' -57.5 NC_004778.3 + 56651 0.68 0.678088
Target:  5'- cCAAGcuagCGCGCGGU--GCUCAGGCg-- -3'
miRNA:   3'- -GUUCa---GCGCGUCGagCGAGUCCGaca -5'
21331 5' -57.5 NC_004778.3 + 25736 0.68 0.667772
Target:  5'- --uGUUGCGUuugccguauuGGCguuuUCGCUCGGGCUGc -3'
miRNA:   3'- guuCAGCGCG----------UCG----AGCGAGUCCGACa -5'
21331 5' -57.5 NC_004778.3 + 34390 0.68 0.667772
Target:  5'- aGAGUUuuUGCAGCUCGUggcCGGGCUGc -3'
miRNA:   3'- gUUCAGc-GCGUCGAGCGa--GUCCGACa -5'
21331 5' -57.5 NC_004778.3 + 106603 0.68 0.667772
Target:  5'- ----gCGCGCAGCgCGCUCAGcGCg-- -3'
miRNA:   3'- guucaGCGCGUCGaGCGAGUC-CGaca -5'
21331 5' -57.5 NC_004778.3 + 121155 0.69 0.61592
Target:  5'- cCAAGUCGCcaauUAGgUCGCcCAGGUUGUa -3'
miRNA:   3'- -GUUCAGCGc---GUCgAGCGaGUCCGACA- -5'
21331 5' -57.5 NC_004778.3 + 68261 0.69 0.595209
Target:  5'- aCGGGUugguggaugcUGCGUcGCUggCGCUCGGGCUGUu -3'
miRNA:   3'- -GUUCA----------GCGCGuCGA--GCGAGUCCGACA- -5'
21331 5' -57.5 NC_004778.3 + 34173 0.69 0.595209
Target:  5'- aCAAGcUGCGCAGCaugcaggacgUGCUguGGCUGUu -3'
miRNA:   3'- -GUUCaGCGCGUCGa---------GCGAguCCGACA- -5'
21331 5' -57.5 NC_004778.3 + 29329 0.69 0.595209
Target:  5'- aAGGUgGCGCGGCgcgCGCUgGGGUg-- -3'
miRNA:   3'- gUUCAgCGCGUCGa--GCGAgUCCGaca -5'
21331 5' -57.5 NC_004778.3 + 84852 0.71 0.475107
Target:  5'- ---uUCGgGCGGCUCGC-CAGGUUGc -3'
miRNA:   3'- guucAGCgCGUCGAGCGaGUCCGACa -5'
21331 5' -57.5 NC_004778.3 + 80506 1.06 0.002213
Target:  5'- cCAAGUCGCGCAGCUCGCUCAGGCUGUc -3'
miRNA:   3'- -GUUCAGCGCGUCGAGCGAGUCCGACA- -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.