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
16547 3' -49.9 NC_004105.1 + 176173 0.67 0.998054
Target:  5'- uUCGCGAcUGCuuCCGAAAuACAUGu- -3'
miRNA:   3'- gAGCGCUcACGuuGGCUUU-UGUACcg -5'
16547 3' -49.9 NC_004105.1 + 184048 0.67 0.997255
Target:  5'- -aCGacaGGGUGUuuauUUGAGGGCAUGGCa -3'
miRNA:   3'- gaGCg--CUCACGuu--GGCUUUUGUACCG- -5'
16547 3' -49.9 NC_004105.1 + 100856 0.68 0.9962
Target:  5'- uCUCcuaGAGUcgGCGACauuguaGAAAGCGUGGCc -3'
miRNA:   3'- -GAGcg-CUCA--CGUUGg-----CUUUUGUACCG- -5'
16547 3' -49.9 NC_004105.1 + 173054 1.14 0.008396
Target:  5'- uCUCGCGAGUGCAACCGAAAACAUGGCg -3'
miRNA:   3'- -GAGCGCUCACGUUGGCUUUUGUACCG- -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.