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
21829 3' -55 NC_004831.2 + 27853 0.66 0.622914
Target:  5'- --gGCGGCGCAC-GCgCACACaUGCu- -3'
miRNA:   3'- guaUGCCGCGUGaCG-GUGUGgAUGcu -5'
21829 3' -55 NC_004831.2 + 33832 1.09 0.000754
Target:  5'- aCAUACGGCGCACUGCCACACCUACGAu -3'
miRNA:   3'- -GUAUGCCGCGUGACGGUGUGGAUGCU- -5'
21829 3' -55 NC_004831.2 + 19951 0.72 0.322434
Target:  5'- --cAgGGCGCACaagGCCACGCUUGCc- -3'
miRNA:   3'- guaUgCCGCGUGa--CGGUGUGGAUGcu -5'
21829 3' -55 NC_004831.2 + 33283 0.66 0.621788
Target:  5'- --aAUGGCGCGg-GCCaacuccgGCACCUGCGc -3'
miRNA:   3'- guaUGCCGCGUgaCGG-------UGUGGAUGCu -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.