miRNA display CGI


Results 1 - 13 of 13 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
20856 3' -58.1 NC_004689.1 + 41860 0.66 0.68571
Target:  5'- uUCCaCGcGGcACgGUCGGCCUUGCUGaauuCCg -3'
miRNA:   3'- -GGG-GCuUCuUG-CAGCCGGGACGAC----GG- -5'
20856 3' -58.1 NC_004689.1 + 18587 0.66 0.675309
Target:  5'- cCCCCGGcccGGugGaCGGCCCU--UGUCa -3'
miRNA:   3'- -GGGGCUu--CUugCaGCCGGGAcgACGG- -5'
20856 3' -58.1 NC_004689.1 + 48967 0.66 0.674266
Target:  5'- gCCUCGGAcuGCG-CGGCCUcgaccugUGCgGCCa -3'
miRNA:   3'- -GGGGCUUcuUGCaGCCGGG-------ACGaCGG- -5'
20856 3' -58.1 NC_004689.1 + 13406 0.66 0.662779
Target:  5'- aCCCGGcaacGGAACG-CcGCCCacgucguaaacgGCUGCCu -3'
miRNA:   3'- gGGGCU----UCUUGCaGcCGGGa-----------CGACGG- -5'
20856 3' -58.1 NC_004689.1 + 45818 0.66 0.654404
Target:  5'- gCCCGcAGAAC-UCgGGCCUUGC-GCUc -3'
miRNA:   3'- gGGGCuUCUUGcAG-CCGGGACGaCGG- -5'
20856 3' -58.1 NC_004689.1 + 41443 0.67 0.61244
Target:  5'- gUCUCGguGAacACGUCGG-CCUGCUGgUg -3'
miRNA:   3'- -GGGGCuuCU--UGCAGCCgGGACGACgG- -5'
20856 3' -58.1 NC_004689.1 + 57964 0.67 0.591517
Target:  5'- aCCCGAcGAACG-CGcacGUCCaGUUGCCg -3'
miRNA:   3'- gGGGCUuCUUGCaGC---CGGGaCGACGG- -5'
20856 3' -58.1 NC_004689.1 + 22926 0.68 0.543962
Target:  5'- gCUgCGAcGAACGUguucggccaugcgccCGGUCCUGUUGCUu -3'
miRNA:   3'- -GGgGCUuCUUGCA---------------GCCGGGACGACGG- -5'
20856 3' -58.1 NC_004689.1 + 17135 0.68 0.53988
Target:  5'- gCCCaCGGuggccgucaccuGGAACcacacCGGCCCUGCggugagGCCg -3'
miRNA:   3'- -GGG-GCU------------UCUUGca---GCCGGGACGa-----CGG- -5'
20856 3' -58.1 NC_004689.1 + 4302 0.68 0.519635
Target:  5'- cCCaCCGAGGAA--UCGGCCUauUGCUuCCg -3'
miRNA:   3'- -GG-GGCUUCUUgcAGCCGGG--ACGAcGG- -5'
20856 3' -58.1 NC_004689.1 + 59259 0.7 0.423742
Target:  5'- uCCCCucauGGACGcCGGuCCCUGCUcGCg -3'
miRNA:   3'- -GGGGcuu-CUUGCaGCC-GGGACGA-CGg -5'
20856 3' -58.1 NC_004689.1 + 54777 0.71 0.371532
Target:  5'- aCCCGccAGGGCGUUGGCUCgggGCagaugGCCg -3'
miRNA:   3'- gGGGCu-UCUUGCAGCCGGGa--CGa----CGG- -5'
20856 3' -58.1 NC_004689.1 + 6043 0.72 0.347122
Target:  5'- aCCaaGAGaGGCGUCGGCCuCUGCcucaGCCa -3'
miRNA:   3'- -GGggCUUcUUGCAGCCGG-GACGa---CGG- -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.