miRNA display CGI


Results 1 - 17 of 17 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
22116 3' -46.3 NC_004927.1 + 43211 0.66 0.999014
Target:  5'- aAGUUGUGGAUgcuggCGUUCAggCgGGCCg -3'
miRNA:   3'- cUUAGCAUUUGa----GCGAGUaaGgCUGG- -5'
22116 3' -46.3 NC_004927.1 + 43009 0.66 0.999014
Target:  5'- ---cUGUcAGCUcaCGCUCGUUCCGAa- -3'
miRNA:   3'- cuuaGCAuUUGA--GCGAGUAAGGCUgg -5'
22116 3' -46.3 NC_004927.1 + 49280 0.66 0.998949
Target:  5'- gGggUCGUGggUUcuucuaagcgaggaCGCUC---CCGACCa -3'
miRNA:   3'- -CuuAGCAUuuGA--------------GCGAGuaaGGCUGG- -5'
22116 3' -46.3 NC_004927.1 + 14273 0.67 0.997792
Target:  5'- --cUCGUAGuucACucauaggcugaaUCGCUCGUUCC-ACCg -3'
miRNA:   3'- cuuAGCAUU---UG------------AGCGAGUAAGGcUGG- -5'
22116 3' -46.3 NC_004927.1 + 36048 0.67 0.99734
Target:  5'- --uUCGUGAACUUGCUCAagUCUauUCa -3'
miRNA:   3'- cuuAGCAUUUGAGCGAGUa-AGGcuGG- -5'
22116 3' -46.3 NC_004927.1 + 16110 0.67 0.996812
Target:  5'- --uUCGUGAGCgcCGCUgAUUCUGucaACCu -3'
miRNA:   3'- cuuAGCAUUUGa-GCGAgUAAGGC---UGG- -5'
22116 3' -46.3 NC_004927.1 + 12378 0.67 0.996202
Target:  5'- --uUCGauGAgUCGUUCAUcggcUCCGGCCc -3'
miRNA:   3'- cuuAGCauUUgAGCGAGUA----AGGCUGG- -5'
22116 3' -46.3 NC_004927.1 + 74432 0.68 0.994692
Target:  5'- uGAUgGUGGGCaCGCUCAUUCguGCCg -3'
miRNA:   3'- cUUAgCAUUUGaGCGAGUAAGgcUGG- -5'
22116 3' -46.3 NC_004927.1 + 70244 0.68 0.991553
Target:  5'- aGAAUCGUcacgGGACUCGgg-AUUCCGGCa -3'
miRNA:   3'- -CUUAGCA----UUUGAGCgagUAAGGCUGg -5'
22116 3' -46.3 NC_004927.1 + 45039 0.69 0.988748
Target:  5'- ---gCGUGAACguacuUCGCUCGaaguUUCCGuACCu -3'
miRNA:   3'- cuuaGCAUUUG-----AGCGAGU----AAGGC-UGG- -5'
22116 3' -46.3 NC_004927.1 + 22135 0.69 0.983248
Target:  5'- ---cCGU-AGCUgGCUCGUaCUGACCg -3'
miRNA:   3'- cuuaGCAuUUGAgCGAGUAaGGCUGG- -5'
22116 3' -46.3 NC_004927.1 + 39449 0.7 0.972109
Target:  5'- ------cAAGCUCGUUCAggcgauacuccuucUUCCGACCa -3'
miRNA:   3'- cuuagcaUUUGAGCGAGU--------------AAGGCUGG- -5'
22116 3' -46.3 NC_004927.1 + 25106 0.71 0.969885
Target:  5'- gGAuUCGUccgaguGgUCGUUCAUUCCGACg -3'
miRNA:   3'- -CUuAGCAuu----UgAGCGAGUAAGGCUGg -5'
22116 3' -46.3 NC_004927.1 + 23881 0.72 0.935054
Target:  5'- --cUCGgugAAGCUCGUUCAU-CCGAgCg -3'
miRNA:   3'- cuuAGCa--UUUGAGCGAGUAaGGCUgG- -5'
22116 3' -46.3 NC_004927.1 + 7327 0.75 0.85701
Target:  5'- uGAGUCGUGGACUCGauaacuacCUCAg--CGACCu -3'
miRNA:   3'- -CUUAGCAUUUGAGC--------GAGUaagGCUGG- -5'
22116 3' -46.3 NC_004927.1 + 69108 0.78 0.694294
Target:  5'- gGAGcCGUAuauGCUCGgUCAcUCCGACCg -3'
miRNA:   3'- -CUUaGCAUu--UGAGCgAGUaAGGCUGG- -5'
22116 3' -46.3 NC_004927.1 + 45087 0.79 0.671746
Target:  5'- gGAAUCGUcuGCUC-CUCAccgcuuuucauaUUCCGACCg -3'
miRNA:   3'- -CUUAGCAuuUGAGcGAGU------------AAGGCUGG- -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.