miRNA display CGI


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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
13626 3' -55.6 NC_003460.1 + 310 1.1 0.000026
Target:  5'- gCGGCUGCUUAAGGCGAACCGGUGGAGg -3'
miRNA:   3'- -GCCGACGAAUUCCGCUUGGCCACCUC- -5'
13626 3' -55.6 NC_003460.1 + 5289 0.71 0.055092
Target:  5'- uGGCucucgacgUGCUUGAGGCGGuuGCUGG-GGAu -3'
miRNA:   3'- gCCG--------ACGAAUUCCGCU--UGGCCaCCUc -5'
13626 3' -55.6 NC_003460.1 + 5020 0.68 0.095275
Target:  5'- gCGGCUGCUcacuGGCGAccucaaugGCgaGGUGGGc -3'
miRNA:   3'- -GCCGACGAauu-CCGCU--------UGg-CCACCUc -5'
13626 3' -55.6 NC_003460.1 + 4775 0.67 0.116574
Target:  5'- aGGUcGC--GAGGCcGACgCGGUGGAGc -3'
miRNA:   3'- gCCGaCGaaUUCCGcUUG-GCCACCUC- -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.