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
1126 3' -55.1 NC_000942.1 + 4338 0.66 0.565756
Target:  5'- gGCGAGGCCAaaGGAauuGCAGUuccuCGCcUACa -3'
miRNA:   3'- -UGCUUCGGUggCCU---UGUCG----GUGcAUG- -5'
1126 3' -55.1 NC_000942.1 + 19528 0.67 0.477424
Target:  5'- uAUGAGGCC-CCuGGACGGUUugGUGg -3'
miRNA:   3'- -UGCUUCGGuGGcCUUGUCGGugCAUg -5'
1126 3' -55.1 NC_000942.1 + 12822 1.1 0.000383
Target:  5'- gACGAAGCCACCGGAACAGCCACGUACg -3'
miRNA:   3'- -UGCUUCGGUGGCCUUGUCGGUGCAUG- -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.