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
33052 3' -48.7 NC_007497.1 + 21772 0.66 0.97062
Target:  5'- cCGAuuGUUC-CGCUgcguUUCCAGCGAUcagCGGc -3'
miRNA:   3'- -GCU--UAAGcGCGA----AGGGUUGCUAa--GCC- -5'
33052 3' -48.7 NC_007497.1 + 25696 0.66 0.967249
Target:  5'- aGuGUUgGUGUcggCCCAGCGGUUCGc -3'
miRNA:   3'- gCuUAAgCGCGaa-GGGUUGCUAAGCc -5'
33052 3' -48.7 NC_007497.1 + 16155 0.66 0.963234
Target:  5'- aCGGcgUUGCGCUgaUCCCGGCacgcaccGAgaCGGc -3'
miRNA:   3'- -GCUuaAGCGCGA--AGGGUUG-------CUaaGCC- -5'
33052 3' -48.7 NC_007497.1 + 16731 0.66 0.959703
Target:  5'- gCGAGcggCGCGC-UCCCGGCGuagCGc -3'
miRNA:   3'- -GCUUaa-GCGCGaAGGGUUGCuaaGCc -5'
33052 3' -48.7 NC_007497.1 + 37629 0.66 0.955514
Target:  5'- gCGGcgUCaGCGaCUUaCCCGACGAcuaUUCGa -3'
miRNA:   3'- -GCUuaAG-CGC-GAA-GGGUUGCU---AAGCc -5'
33052 3' -48.7 NC_007497.1 + 29849 0.67 0.951039
Target:  5'- cCGAccaGUUCGCGCUcgcgCCCGAaGAcuacgCGGa -3'
miRNA:   3'- -GCU---UAAGCGCGAa---GGGUUgCUaa---GCC- -5'
33052 3' -48.7 NC_007497.1 + 8302 0.67 0.946272
Target:  5'- -----cCGCGCUUCUCAGCGAc---- -3'
miRNA:   3'- gcuuaaGCGCGAAGGGUUGCUaagcc -5'
33052 3' -48.7 NC_007497.1 + 32597 0.67 0.946272
Target:  5'- ----gUCGuCGCUUCUCGGCGGacuggCGGg -3'
miRNA:   3'- gcuuaAGC-GCGAAGGGUUGCUaa---GCC- -5'
33052 3' -48.7 NC_007497.1 + 22183 0.67 0.946272
Target:  5'- aCGAG-UCGCcCUUCCggagaAGCGAUUCGu -3'
miRNA:   3'- -GCUUaAGCGcGAAGGg----UUGCUAAGCc -5'
33052 3' -48.7 NC_007497.1 + 38284 0.68 0.917956
Target:  5'- cCGGcaagUCGaGaCUUCCCuuucuGCGAUUCGGa -3'
miRNA:   3'- -GCUua--AGCgC-GAAGGGu----UGCUAAGCC- -5'
33052 3' -48.7 NC_007497.1 + 34434 0.68 0.917956
Target:  5'- uCGAcgUCGCGCUgCUCGcAUGAUccCGGa -3'
miRNA:   3'- -GCUuaAGCGCGAaGGGU-UGCUAa-GCC- -5'
33052 3' -48.7 NC_007497.1 + 40204 0.69 0.887613
Target:  5'- uCGAGaUCaGCGCUgaccuugucgaccuUCgCCAACGcgUCGGa -3'
miRNA:   3'- -GCUUaAG-CGCGA--------------AG-GGUUGCuaAGCC- -5'
33052 3' -48.7 NC_007497.1 + 12190 0.7 0.857287
Target:  5'- gCGAGg--GCGCUUucgcUCCAccACGAUUCGGu -3'
miRNA:   3'- -GCUUaagCGCGAA----GGGU--UGCUAAGCC- -5'
33052 3' -48.7 NC_007497.1 + 5169 0.71 0.780389
Target:  5'- gCGGAa-CGCGCUUaCCCGACGAcUgGGu -3'
miRNA:   3'- -GCUUaaGCGCGAA-GGGUUGCUaAgCC- -5'
33052 3' -48.7 NC_007497.1 + 32442 0.75 0.554419
Target:  5'- aCGAGUUCGUcgucaagGCUUCU--GCGGUUCGGa -3'
miRNA:   3'- -GCUUAAGCG-------CGAAGGguUGCUAAGCC- -5'
33052 3' -48.7 NC_007497.1 + 17817 1.12 0.003092
Target:  5'- cCGAAUUCGCGCUUCCCAACGAUUCGGu -3'
miRNA:   3'- -GCUUAAGCGCGAAGGGUUGCUAAGCC- -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.