miRNA display CGI


Results 1 - 20 of 199 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
11048 3' -56.4 NC_002794.1 + 157815 0.66 0.944407
Target:  5'- -----aUACGCCGCGCGGUauccgacggaGuUGAUCCu -3'
miRNA:   3'- guucugGUGCGGCGUGCCG----------C-ACUAGG- -5'
11048 3' -56.4 NC_002794.1 + 70664 0.66 0.944407
Target:  5'- --cGugCGCggcgGCCGcCGCGGCgGUGAcgUCCu -3'
miRNA:   3'- guuCugGUG----CGGC-GUGCCG-CACU--AGG- -5'
11048 3' -56.4 NC_002794.1 + 194019 0.66 0.944407
Target:  5'- --cGGCCGcCGCCGC-CGGCGccucgCCc -3'
miRNA:   3'- guuCUGGU-GCGGCGuGCCGCacua-GG- -5'
11048 3' -56.4 NC_002794.1 + 133273 0.66 0.944407
Target:  5'- gGAGACuCGCGUgugCGCGCGGCuaucUGuucGUCCg -3'
miRNA:   3'- gUUCUG-GUGCG---GCGUGCCGc---AC---UAGG- -5'
11048 3' -56.4 NC_002794.1 + 120841 0.66 0.944407
Target:  5'- gGGGGCUAUcCCuGCGCGGcCGUcGUCCa -3'
miRNA:   3'- gUUCUGGUGcGG-CGUGCC-GCAcUAGG- -5'
11048 3' -56.4 NC_002794.1 + 120070 0.66 0.944407
Target:  5'- gGAGGCCgACGCgGCggugGCGGCGacGA-CCg -3'
miRNA:   3'- gUUCUGG-UGCGgCG----UGCCGCa-CUaGG- -5'
11048 3' -56.4 NC_002794.1 + 107239 0.66 0.944407
Target:  5'- gGGGGCgGCGUCGCGgaccuggccCGGCG-GAgCCg -3'
miRNA:   3'- gUUCUGgUGCGGCGU---------GCCGCaCUaGG- -5'
11048 3' -56.4 NC_002794.1 + 6922 0.66 0.944407
Target:  5'- --uGACCAgaagccgcagcCGCCGCGCGGCacccucucGGUCUc -3'
miRNA:   3'- guuCUGGU-----------GCGGCGUGCCGca------CUAGG- -5'
11048 3' -56.4 NC_002794.1 + 183185 0.66 0.943971
Target:  5'- gGGGACCgagacGCGCCGCcacgccgGCGGCGc-GUUCg -3'
miRNA:   3'- gUUCUGG-----UGCGGCG-------UGCCGCacUAGG- -5'
11048 3' -56.4 NC_002794.1 + 103905 0.66 0.941756
Target:  5'- gCGGGGCgagaACGCCGCgcaacgcggcgagcaGCGcGCGUGG-CCg -3'
miRNA:   3'- -GUUCUGg---UGCGGCG---------------UGC-CGCACUaGG- -5'
11048 3' -56.4 NC_002794.1 + 146982 0.66 0.939944
Target:  5'- gCGAGGuCgGCGCCGCcggccgacgucgGCGGCGgcggCCg -3'
miRNA:   3'- -GUUCU-GgUGCGGCG------------UGCCGCacuaGG- -5'
11048 3' -56.4 NC_002794.1 + 57109 0.66 0.939944
Target:  5'- aCAcGGCCgACGCCauggaGCGCGGCcUGGUgCa -3'
miRNA:   3'- -GUuCUGG-UGCGG-----CGUGCCGcACUAgG- -5'
11048 3' -56.4 NC_002794.1 + 55187 0.66 0.939944
Target:  5'- uCGAGGCgGCgGCCcuaacaccgGCGCGGCG-GAggCCg -3'
miRNA:   3'- -GUUCUGgUG-CGG---------CGUGCCGCaCUa-GG- -5'
11048 3' -56.4 NC_002794.1 + 99798 0.66 0.939944
Target:  5'- aCGAG-CgCGCGCCGCG-GGCGccgGcgCCg -3'
miRNA:   3'- -GUUCuG-GUGCGGCGUgCCGCa--CuaGG- -5'
11048 3' -56.4 NC_002794.1 + 82044 0.66 0.939944
Target:  5'- -uGGGCgGCgGCgGCgGCGGCGUcGUCCu -3'
miRNA:   3'- guUCUGgUG-CGgCG-UGCCGCAcUAGG- -5'
11048 3' -56.4 NC_002794.1 + 58308 0.66 0.939944
Target:  5'- aCGAGACCgccgcgcucugcACGCCGCGCGuGCucgucggGAaCCu -3'
miRNA:   3'- -GUUCUGG------------UGCGGCGUGC-CGca-----CUaGG- -5'
11048 3' -56.4 NC_002794.1 + 86986 0.66 0.939944
Target:  5'- aCGAGGuCCG-GCgGCuuucgGCGGCGUGGguUCCg -3'
miRNA:   3'- -GUUCU-GGUgCGgCG-----UGCCGCACU--AGG- -5'
11048 3' -56.4 NC_002794.1 + 134246 0.66 0.939944
Target:  5'- cCGAGGCUguACGUguucaucgacgCGUGCGGCGUGGUg- -3'
miRNA:   3'- -GUUCUGG--UGCG-----------GCGUGCCGCACUAgg -5'
11048 3' -56.4 NC_002794.1 + 109521 0.66 0.939944
Target:  5'- -cGGcCCGCGCuCGUuCGGCGUcGggCCg -3'
miRNA:   3'- guUCuGGUGCG-GCGuGCCGCA-CuaGG- -5'
11048 3' -56.4 NC_002794.1 + 190986 0.66 0.939944
Target:  5'- -cAGGCaGCGCgGCgACGGCGUcgcGAUCg -3'
miRNA:   3'- guUCUGgUGCGgCG-UGCCGCA---CUAGg -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.