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
6259 3' -57.7 NC_001844.1 + 88760 0.66 0.82443
Target:  5'- cGCCCCACCCUAGaaUGaGCCuGCa- -3'
miRNA:   3'- uUGGGGUGGGGUUgcACaUGGuCGcg -5'
6259 3' -57.7 NC_001844.1 + 116368 0.66 0.815869
Target:  5'- uGCUCCucucagGCCCCAGggcuCGgaaccUGCCAGCGCg -3'
miRNA:   3'- uUGGGG------UGGGGUU----GCac---AUGGUCGCG- -5'
6259 3' -57.7 NC_001844.1 + 133880 0.66 0.807141
Target:  5'- cAGCCCCACaccaCCAAgGcaauUAgCAGCGCg -3'
miRNA:   3'- -UUGGGGUGg---GGUUgCac--AUgGUCGCG- -5'
6259 3' -57.7 NC_001844.1 + 108713 0.66 0.806259
Target:  5'- uAGCCCUagcguuagcguuaGCCCUAGCGUuagcGUuagcCCAGCGUu -3'
miRNA:   3'- -UUGGGG-------------UGGGGUUGCA----CAu---GGUCGCG- -5'
6259 3' -57.7 NC_001844.1 + 121847 0.67 0.78922
Target:  5'- gGugCUgAgCUCAGCGUGggucuccACCGGCGCg -3'
miRNA:   3'- -UugGGgUgGGGUUGCACa------UGGUCGCG- -5'
6259 3' -57.7 NC_001844.1 + 117379 0.67 0.780045
Target:  5'- cAACCUCAUCC--GCGca-GCCAGCGCg -3'
miRNA:   3'- -UUGGGGUGGGguUGCacaUGGUCGCG- -5'
6259 3' -57.7 NC_001844.1 + 120342 0.67 0.780045
Target:  5'- -uCCCgGCCCCcgaGACaG-GUACgGGCGCa -3'
miRNA:   3'- uuGGGgUGGGG---UUG-CaCAUGgUCGCG- -5'
6259 3' -57.7 NC_001844.1 + 65184 0.67 0.761307
Target:  5'- aGGCUcaaCCACCCCAAUcUGUuauugccacACCGGUGCc -3'
miRNA:   3'- -UUGG---GGUGGGGUUGcACA---------UGGUCGCG- -5'
6259 3' -57.7 NC_001844.1 + 121676 0.67 0.760357
Target:  5'- aGGCCCCGCUCCucuccugAGCGcGU--CAGCGCa -3'
miRNA:   3'- -UUGGGGUGGGG-------UUGCaCAugGUCGCG- -5'
6259 3' -57.7 NC_001844.1 + 113926 0.67 0.742113
Target:  5'- cACCCuCACCCCu-CGgGUcGCCuGCGCc -3'
miRNA:   3'- uUGGG-GUGGGGuuGCaCA-UGGuCGCG- -5'
6259 3' -57.7 NC_001844.1 + 144534 0.68 0.702652
Target:  5'- uGCCCCaagGCCCCAuCGguugGCC-GCGCg -3'
miRNA:   3'- uUGGGG---UGGGGUuGCaca-UGGuCGCG- -5'
6259 3' -57.7 NC_001844.1 + 54779 0.68 0.692616
Target:  5'- uGAgCgCACCCCAAaaGUGUACUgugauGGCGCa -3'
miRNA:   3'- -UUgGgGUGGGGUUg-CACAUGG-----UCGCG- -5'
6259 3' -57.7 NC_001844.1 + 233 0.69 0.662243
Target:  5'- -cCCCCACCgCCcauAACGUGUGCUuaucacgauGGCGa -3'
miRNA:   3'- uuGGGGUGG-GG---UUGCACAUGG---------UCGCg -5'
6259 3' -57.7 NC_001844.1 + 137876 0.7 0.58077
Target:  5'- --aCCCAUCCCcACGcuccaGCCAGCGCa -3'
miRNA:   3'- uugGGGUGGGGuUGCaca--UGGUCGCG- -5'
6259 3' -57.7 NC_001844.1 + 25056 0.71 0.508317
Target:  5'- aAGCCCCACCugcgguguuuuuagCCAACGUGga-CGGaCGCa -3'
miRNA:   3'- -UUGGGGUGG--------------GGUUGCACaugGUC-GCG- -5'
6259 3' -57.7 NC_001844.1 + 116996 0.72 0.501556
Target:  5'- cGGCCUC-CCCCGAgGggagGCCGGCGCc -3'
miRNA:   3'- -UUGGGGuGGGGUUgCaca-UGGUCGCG- -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.