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
1153 5' -48.6 NC_001132.2 + 29406 0.67 0.998616
Target:  5'- --uUGUCUUCGGgcaacgcCGCGgugUCCGAa -3'
miRNA:   3'- uuuACAGGAGCCau-----GUGCauaAGGCU- -5'
1153 5' -48.6 NC_001132.2 + 148432 0.7 0.983822
Target:  5'- -cGUGUCgugUUCGGUGCAUGUAUcgCCGu -3'
miRNA:   3'- uuUACAG---GAGCCAUGUGCAUAa-GGCu -5'
1153 5' -48.6 NC_001132.2 + 152481 0.73 0.930071
Target:  5'- ---gGUCCUCGGUACcaucgguCGUAU-CCGGg -3'
miRNA:   3'- uuuaCAGGAGCCAUGu------GCAUAaGGCU- -5'
1153 5' -48.6 NC_001132.2 + 2364 1.07 0.020573
Target:  5'- aAAAUGUCCUCGGUACACGUAUUCCGAc -3'
miRNA:   3'- -UUUACAGGAGCCAUGUGCAUAAGGCU- -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.