miRNA display CGI


Results 1 - 19 of 19 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
8644 3' -49.4 NC_002229.2 + 3289 0.66 0.998191
Target:  5'- ----cAGUGCCAcgugugagggGACGAUCGGGaCGgGa -3'
miRNA:   3'- cuuuuUCGCGGU----------UUGUUAGCCC-GCgU- -5'
8644 3' -49.4 NC_002229.2 + 135423 0.66 0.998191
Target:  5'- ----cAGUGCCAcgugugagggGACGAUCGGGaCGgGa -3'
miRNA:   3'- cuuuuUCGCGGU----------UUGUUAGCCC-GCgU- -5'
8644 3' -49.4 NC_002229.2 + 166431 0.66 0.99783
Target:  5'- aGGAAAGGCGUgGAaccuuaaacACAAauUCGGGgGUAa -3'
miRNA:   3'- -CUUUUUCGCGgUU---------UGUU--AGCCCgCGU- -5'
8644 3' -49.4 NC_002229.2 + 146183 0.66 0.99783
Target:  5'- aGGAAAGGCGUgGAaccuuaaacACAAauUCGGGgGUAa -3'
miRNA:   3'- -CUUUUUCGCGgUU---------UGUU--AGCCCgCGU- -5'
8644 3' -49.4 NC_002229.2 + 111389 0.67 0.996368
Target:  5'- ---cGAGCGCuCGcaugcuuauacAACGAUCGGGUauGCAa -3'
miRNA:   3'- cuuuUUCGCG-GU-----------UUGUUAGCCCG--CGU- -5'
8644 3' -49.4 NC_002229.2 + 173356 0.67 0.995003
Target:  5'- -----uGUGCCAAACGGaCGGGUaGCGg -3'
miRNA:   3'- cuuuuuCGCGGUUUGUUaGCCCG-CGU- -5'
8644 3' -49.4 NC_002229.2 + 139258 0.67 0.995003
Target:  5'- -----uGUGCCAAACGGaCGGGUaGCGg -3'
miRNA:   3'- cuuuuuCGCGGUUUGUUaGCCCG-CGU- -5'
8644 3' -49.4 NC_002229.2 + 164287 0.68 0.991031
Target:  5'- -----cGCuaGCCGGACAAUCGGGUaCAu -3'
miRNA:   3'- cuuuuuCG--CGGUUUGUUAGCCCGcGU- -5'
8644 3' -49.4 NC_002229.2 + 148327 0.68 0.991031
Target:  5'- -----cGCuaGCCGGACAAUCGGGUaCAu -3'
miRNA:   3'- cuuuuuCG--CGGUUUGUUAGCCCGcGU- -5'
8644 3' -49.4 NC_002229.2 + 134007 0.68 0.989726
Target:  5'- gGAGGugguGGgGUCGAGCAGagcUGGGCGCAa -3'
miRNA:   3'- -CUUUu---UCgCGGUUUGUUa--GCCCGCGU- -5'
8644 3' -49.4 NC_002229.2 + 134130 0.68 0.989726
Target:  5'- gGAGGugguGGgGUCGAGCAGagcUGGGCGCAa -3'
miRNA:   3'- -CUUUu---UCgCGGUUUGUUa--GCCCGCGU- -5'
8644 3' -49.4 NC_002229.2 + 4582 0.68 0.989726
Target:  5'- gGAGGugguGGgGUCGAGCAGagcUGGGCGCAa -3'
miRNA:   3'- -CUUUu---UCgCGGUUUGUUa--GCCCGCGU- -5'
8644 3' -49.4 NC_002229.2 + 4705 0.68 0.989726
Target:  5'- gGAGGugguGGgGUCGAGCAGagcUGGGCGCAa -3'
miRNA:   3'- -CUUUu---UCgCGGUUUGUUa--GCCCGCGU- -5'
8644 3' -49.4 NC_002229.2 + 27638 0.69 0.986506
Target:  5'- -uGAGAGCGCUAauaauuucgccgcGACAAUaGGGCuGCAg -3'
miRNA:   3'- cuUUUUCGCGGU-------------UUGUUAgCCCG-CGU- -5'
8644 3' -49.4 NC_002229.2 + 173118 0.7 0.970365
Target:  5'- aAAAAGGCGCCAAAaAAUUGcGCGCc -3'
miRNA:   3'- cUUUUUCGCGGUUUgUUAGCcCGCGu -5'
8644 3' -49.4 NC_002229.2 + 139496 0.7 0.970365
Target:  5'- aAAAAGGCGCCAAAaAAUUGcGCGCc -3'
miRNA:   3'- cUUUUUCGCGGUUUgUUAGCcCGCGu -5'
8644 3' -49.4 NC_002229.2 + 95101 0.71 0.956299
Target:  5'- -cGAAGGUGuccuauauCCGGACAuUCGGGUGCAu -3'
miRNA:   3'- cuUUUUCGC--------GGUUUGUuAGCCCGCGU- -5'
8644 3' -49.4 NC_002229.2 + 139713 0.89 0.201682
Target:  5'- aGAAAAAGCGCCAAACAAU-GGcGCGCAa -3'
miRNA:   3'- -CUUUUUCGCGGUUUGUUAgCC-CGCGU- -5'
8644 3' -49.4 NC_002229.2 + 172901 0.89 0.201682
Target:  5'- aGAAAAAGCGCCAAACAAU-GGcGCGCAa -3'
miRNA:   3'- -CUUUUUCGCGGUUUGUUAgCC-CGCGU- -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.