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
1275 5' -52.5 NC_001317.1 + 1106 1.06 0.001195
Target:  5'- gAAUGUCGCGCUUAUCGAGUACCGGCAc -3'
miRNA:   3'- -UUACAGCGCGAAUAGCUCAUGGCCGU- -5'
1275 5' -52.5 NC_001317.1 + 5090 0.7 0.429481
Target:  5'- --gGUCGUGCUgg-CGAugGUGCCGGUc -3'
miRNA:   3'- uuaCAGCGCGAauaGCU--CAUGGCCGu -5'
1275 5' -52.5 NC_001317.1 + 9443 0.66 0.643537
Target:  5'- ---uUCGCGCUUAaugCGGccuuucuugcuccGUACCGGCu -3'
miRNA:   3'- uuacAGCGCGAAUa--GCU-------------CAUGGCCGu -5'
1275 5' -52.5 NC_001317.1 + 27121 0.66 0.668359
Target:  5'- uAUGUCGCGCgccgaUAUUGAccUGCUGGCc -3'
miRNA:   3'- uUACAGCGCGa----AUAGCUc-AUGGCCGu -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.