miRNA display CGI


Results 1 - 20 of 64 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
25542 3' -55.3 NC_005337.1 + 113051 1.09 0.002784
Target:  5'- aGAACAAGCGCAGCCUCGAGGUCGUCGa -3'
miRNA:   3'- -CUUGUUCGCGUCGGAGCUCCAGCAGC- -5'
25542 3' -55.3 NC_005337.1 + 1003 0.8 0.240675
Target:  5'- aGGGCGGGCGUcGCCUgGAGGcCGUCGa -3'
miRNA:   3'- -CUUGUUCGCGuCGGAgCUCCaGCAGC- -5'
25542 3' -55.3 NC_005337.1 + 1003 0.8 0.240675
Target:  5'- aGGGCGGGCGUcGCCUgGAGGcCGUCGa -3'
miRNA:   3'- -CUUGUUCGCGuCGGAgCUCCaGCAGC- -5'
25542 3' -55.3 NC_005337.1 + 60274 0.79 0.252698
Target:  5'- gGGGCAGGCGCgggggugggaguGGgCUUGGGGUCGUCGg -3'
miRNA:   3'- -CUUGUUCGCG------------UCgGAGCUCCAGCAGC- -5'
25542 3' -55.3 NC_005337.1 + 41540 0.78 0.312957
Target:  5'- cGGAUGucGGuCGCGGCCaCGAGGUCGUCGa -3'
miRNA:   3'- -CUUGU--UC-GCGUCGGaGCUCCAGCAGC- -5'
25542 3' -55.3 NC_005337.1 + 103937 0.76 0.391962
Target:  5'- gGGGCuGGUGUacgAGCC-CGAGGUCGUCGa -3'
miRNA:   3'- -CUUGuUCGCG---UCGGaGCUCCAGCAGC- -5'
25542 3' -55.3 NC_005337.1 + 31923 0.75 0.418067
Target:  5'- -----uGCGCGGCCUCGGGGgcaUGUCGa -3'
miRNA:   3'- cuuguuCGCGUCGGAGCUCCa--GCAGC- -5'
25542 3' -55.3 NC_005337.1 + 109735 0.75 0.418067
Target:  5'- cGAGCAGucggcgguGCGCAGCaCguccgCGAGGUCGUCc -3'
miRNA:   3'- -CUUGUU--------CGCGUCG-Ga----GCUCCAGCAGc -5'
25542 3' -55.3 NC_005337.1 + 124662 0.75 0.418067
Target:  5'- --uCGAGCGCAGCCcCGAGGUCa--- -3'
miRNA:   3'- cuuGUUCGCGUCGGaGCUCCAGcagc -5'
25542 3' -55.3 NC_005337.1 + 41559 0.74 0.502252
Target:  5'- cAGCAGGCGCAcGCgCUUGGaGUCGUCGa -3'
miRNA:   3'- cUUGUUCGCGU-CG-GAGCUcCAGCAGC- -5'
25542 3' -55.3 NC_005337.1 + 30326 0.72 0.603355
Target:  5'- cGGAgGAGCGCAcGCgCUCGcGGUUGUUGa -3'
miRNA:   3'- -CUUgUUCGCGU-CG-GAGCuCCAGCAGC- -5'
25542 3' -55.3 NC_005337.1 + 12092 0.72 0.603355
Target:  5'- cGAugAGGCGCGggcacGCUUCGGGGUUGUa- -3'
miRNA:   3'- -CUugUUCGCGU-----CGGAGCUCCAGCAgc -5'
25542 3' -55.3 NC_005337.1 + 45226 0.71 0.634422
Target:  5'- cGGCGGaCGCGGCCuUCGAGcUCGUCGg -3'
miRNA:   3'- cUUGUUcGCGUCGG-AGCUCcAGCAGC- -5'
25542 3' -55.3 NC_005337.1 + 73528 0.71 0.655137
Target:  5'- -cGCGAG-GCGGCaCUCGAguacauccgcgcGGUCGUCGa -3'
miRNA:   3'- cuUGUUCgCGUCG-GAGCU------------CCAGCAGC- -5'
25542 3' -55.3 NC_005337.1 + 127582 0.71 0.675776
Target:  5'- aGGCGGGCGCAGCCgu--GGaCGUCGc -3'
miRNA:   3'- cUUGUUCGCGUCGGagcuCCaGCAGC- -5'
25542 3' -55.3 NC_005337.1 + 83662 0.71 0.686045
Target:  5'- uGGACA---GCAGCCggCGcAGGUCGUCGa -3'
miRNA:   3'- -CUUGUucgCGUCGGa-GC-UCCAGCAGC- -5'
25542 3' -55.3 NC_005337.1 + 68245 0.71 0.686045
Target:  5'- ---gGAGCGCGGCCggcgCGuGGgcgagCGUCGa -3'
miRNA:   3'- cuugUUCGCGUCGGa---GCuCCa----GCAGC- -5'
25542 3' -55.3 NC_005337.1 + 79784 0.7 0.706437
Target:  5'- --cCAGGCGCGGguCCUucacggugcCGAGGUCGUCc -3'
miRNA:   3'- cuuGUUCGCGUC--GGA---------GCUCCAGCAGc -5'
25542 3' -55.3 NC_005337.1 + 5821 0.7 0.726571
Target:  5'- -cGCAAGCGCuGCa--GAGGUCGUa- -3'
miRNA:   3'- cuUGUUCGCGuCGgagCUCCAGCAgc -5'
25542 3' -55.3 NC_005337.1 + 67453 0.7 0.735527
Target:  5'- aGACGgugauccGGCGCAGCCgccgcuucgUCGAGGgCGUCu -3'
miRNA:   3'- cUUGU-------UCGCGUCGG---------AGCUCCaGCAGc -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.