miRNA display CGI


Results 1 - 20 of 45 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
28058 3' -57.7 NC_005887.1 + 1582 0.66 0.538152
Target:  5'- cGCCGGCuCGgcg-GCgCGCGgcgCGCCa -3'
miRNA:   3'- -CGGCCG-GCauuaCG-GCGCagaGUGGa -5'
28058 3' -57.7 NC_005887.1 + 35078 0.66 0.527508
Target:  5'- gGgCGGCCGgggccGAUGUCGCGg-UCGCUg -3'
miRNA:   3'- -CgGCCGGCa----UUACGGCGCagAGUGGa -5'
28058 3' -57.7 NC_005887.1 + 5236 0.66 0.527508
Target:  5'- uCCGGgCG-AcgGCCGCGcgaUCGCCg -3'
miRNA:   3'- cGGCCgGCaUuaCGGCGCag-AGUGGa -5'
28058 3' -57.7 NC_005887.1 + 24615 0.66 0.516945
Target:  5'- cGCgCGGCCGU---GCCgaGCGUCUugaagaacggCACCUu -3'
miRNA:   3'- -CG-GCCGGCAuuaCGG--CGCAGA----------GUGGA- -5'
28058 3' -57.7 NC_005887.1 + 24882 0.66 0.506467
Target:  5'- cGgCGGCCG--AUGCCGCGcgCUCGg-- -3'
miRNA:   3'- -CgGCCGGCauUACGGCGCa-GAGUgga -5'
28058 3' -57.7 NC_005887.1 + 18792 0.66 0.485792
Target:  5'- uGCCGGCCGgcGAUGCgggcggcgucaGCGUacgcugccagCUCACCc -3'
miRNA:   3'- -CGGCCGGCa-UUACGg----------CGCA----------GAGUGGa -5'
28058 3' -57.7 NC_005887.1 + 4788 0.67 0.475606
Target:  5'- cGCCaGCCGgcgagGCCGUG-CUCGCg- -3'
miRNA:   3'- -CGGcCGGCauua-CGGCGCaGAGUGga -5'
28058 3' -57.7 NC_005887.1 + 41363 0.67 0.475606
Target:  5'- cGgCGGCCGgcaauuUGCgCGUGUCggcgaUCACCUc -3'
miRNA:   3'- -CgGCCGGCauu---ACG-GCGCAG-----AGUGGA- -5'
28058 3' -57.7 NC_005887.1 + 40368 0.67 0.475606
Target:  5'- aGCCGGCCGgcagguUGUCGaUGuUCUCgGCCg -3'
miRNA:   3'- -CGGCCGGCauu---ACGGC-GC-AGAG-UGGa -5'
28058 3' -57.7 NC_005887.1 + 24108 0.67 0.471561
Target:  5'- gGCCcuuGGCCGUGcUGCgCGUGUCgugcggugugaagCGCCg -3'
miRNA:   3'- -CGG---CCGGCAUuACG-GCGCAGa------------GUGGa -5'
28058 3' -57.7 NC_005887.1 + 11542 0.67 0.465527
Target:  5'- aCUGGCCGag--GCCGCGgugCgCGCCa -3'
miRNA:   3'- cGGCCGGCauuaCGGCGCa--GaGUGGa -5'
28058 3' -57.7 NC_005887.1 + 40856 0.67 0.465527
Target:  5'- cGCaCGGCCGc---GCCGCG-CgagCGCCg -3'
miRNA:   3'- -CG-GCCGGCauuaCGGCGCaGa--GUGGa -5'
28058 3' -57.7 NC_005887.1 + 35900 0.67 0.465527
Target:  5'- cCCGGUcuucggacagaCGgAAUGCCGCGUgUUGCCg -3'
miRNA:   3'- cGGCCG-----------GCaUUACGGCGCAgAGUGGa -5'
28058 3' -57.7 NC_005887.1 + 26344 0.67 0.465527
Target:  5'- cGCUGGCCG-GGUG-CGCGaacaUCACCg -3'
miRNA:   3'- -CGGCCGGCaUUACgGCGCag--AGUGGa -5'
28058 3' -57.7 NC_005887.1 + 7299 0.67 0.45556
Target:  5'- uGUgGGUCGUcGUGUCGCcGUCcgUCGCCg -3'
miRNA:   3'- -CGgCCGGCAuUACGGCG-CAG--AGUGGa -5'
28058 3' -57.7 NC_005887.1 + 39269 0.67 0.43598
Target:  5'- -gCGGCCGUGGU-CgGCGUUcagCGCCUg -3'
miRNA:   3'- cgGCCGGCAUUAcGgCGCAGa--GUGGA- -5'
28058 3' -57.7 NC_005887.1 + 308 0.67 0.43598
Target:  5'- aGCgaGGCCGcGGUGCgCGCGUa-CACCg -3'
miRNA:   3'- -CGg-CCGGCaUUACG-GCGCAgaGUGGa -5'
28058 3' -57.7 NC_005887.1 + 13203 0.67 0.43598
Target:  5'- cGCCGGCCGacguGUGUCGCuG-CUgaCGCCa -3'
miRNA:   3'- -CGGCCGGCau--UACGGCG-CaGA--GUGGa -5'
28058 3' -57.7 NC_005887.1 + 751 0.67 0.432122
Target:  5'- cGCCGGCCGccgcaccuggGCCGCcG-CUgGCCg -3'
miRNA:   3'- -CGGCCGGCauua------CGGCG-CaGAgUGGa -5'
28058 3' -57.7 NC_005887.1 + 17902 0.67 0.426373
Target:  5'- -aCGGCC-UGAUGCUGCGUgUCcugcucgcgACCUg -3'
miRNA:   3'- cgGCCGGcAUUACGGCGCAgAG---------UGGA- -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.