miRNA display CGI


Results 1 - 8 of 8 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
9810 3' -55.5 NC_002593.1 + 65946 0.66 0.831877
Target:  5'- uUCCGC-UUAUCGaacCCACCguuaGGCAGUg -3'
miRNA:   3'- gAGGCGaAAUGGC---GGUGGa---UCGUCGu -5'
9810 3' -55.5 NC_002593.1 + 38678 0.66 0.823077
Target:  5'- aUCCGCcgUgaaagcgcGCCGUCGCCUgcugcuagguGGCGGUAa -3'
miRNA:   3'- gAGGCGaaA--------UGGCGGUGGA----------UCGUCGU- -5'
9810 3' -55.5 NC_002593.1 + 1097 0.67 0.766637
Target:  5'- --aCGCaagUGCUGCCAUCgUGGCGGCu -3'
miRNA:   3'- gagGCGaa-AUGGCGGUGG-AUCGUCGu -5'
9810 3' -55.5 NC_002593.1 + 37945 0.68 0.70552
Target:  5'- ---aGCUggucGgCGCCGCCUGGCGGCc -3'
miRNA:   3'- gaggCGAaa--UgGCGGUGGAUCGUCGu -5'
9810 3' -55.5 NC_002593.1 + 89670 0.7 0.609937
Target:  5'- gCUCgCGUagUACgGCgGCUUGGCAGCAu -3'
miRNA:   3'- -GAG-GCGaaAUGgCGgUGGAUCGUCGU- -5'
9810 3' -55.5 NC_002593.1 + 31162 0.7 0.588662
Target:  5'- cCUCCGCUaUGCaCGuCCA-CUGGUAGCGc -3'
miRNA:   3'- -GAGGCGAaAUG-GC-GGUgGAUCGUCGU- -5'
9810 3' -55.5 NC_002593.1 + 959 0.72 0.485475
Target:  5'- -aUCGCUUagguacaGCCGCCACgaUGGCAGCAc -3'
miRNA:   3'- gaGGCGAAa------UGGCGGUGg-AUCGUCGU- -5'
9810 3' -55.5 NC_002593.1 + 38526 1.09 0.001779
Target:  5'- gCUCCGCUUUACCGCCACCUAGCAGCAg -3'
miRNA:   3'- -GAGGCGAAAUGGCGGUGGAUCGUCGU- -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.