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
360 3' -56.7 AC_000011.1 + 6394 0.66 0.512463
Target:  5'- aGCAgaaggggGGCaggGGGUCCAGcaugaccUCGUCgGGg -3'
miRNA:   3'- aCGUa------CCGga-CCCAGGUU-------AGCAGgCU- -5'
360 3' -56.7 AC_000011.1 + 12147 1.09 0.000395
Target:  5'- uUGCAUGGCCUGGGUCCAAUCGUCCGAg -3'
miRNA:   3'- -ACGUACCGGACCCAGGUUAGCAGGCU- -5'
360 3' -56.7 AC_000011.1 + 22917 0.66 0.513537
Target:  5'- aGCAgccgcGGCCaggGGGUCgCucUCGUCCa- -3'
miRNA:   3'- aCGUa----CCGGa--CCCAG-GuuAGCAGGcu -5'
360 3' -56.7 AC_000011.1 + 25863 0.68 0.374496
Target:  5'- cUGgGUGGUg-GGGUUCGggaAUCGUCCGGu -3'
miRNA:   3'- -ACgUACCGgaCCCAGGU---UAGCAGGCU- -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.