miRNA display CGI


Results 1 - 6 of 6 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
16639 3' -56.2 NC_004156.1 + 192284 0.66 0.917914
Target:  5'- uAUugAGCGUu--GAGCgaaaACCGUCUCUAu -3'
miRNA:   3'- -UAugUCGCGucuCUCG----UGGCAGAGGU- -5'
16639 3' -56.2 NC_004156.1 + 10788 0.66 0.923443
Target:  5'- gGUGguGCGUAGucGGCAUCGUCaguaUCCGa -3'
miRNA:   3'- -UAUguCGCGUCucUCGUGGCAG----AGGU- -5'
16639 3' -56.2 NC_004156.1 + 224619 0.67 0.906157
Target:  5'- cUAUuGCGCAGAGAGUcaAUC-UCUCCGu -3'
miRNA:   3'- uAUGuCGCGUCUCUCG--UGGcAGAGGU- -5'
16639 3' -56.2 NC_004156.1 + 132950 0.67 0.893483
Target:  5'- aAUGCGGUGCAcguaaacgguacGAGuGCACUGUUUCUc -3'
miRNA:   3'- -UAUGUCGCGU------------CUCuCGUGGCAGAGGu -5'
16639 3' -56.2 NC_004156.1 + 52444 0.69 0.81746
Target:  5'- ---aGGCGUAGAGAGCgGCgGUC-CCAg -3'
miRNA:   3'- uaugUCGCGUCUCUCG-UGgCAGaGGU- -5'
16639 3' -56.2 NC_004156.1 + 79110 1.07 0.00497
Target:  5'- cAUACAGCGCAGAGAGCACCGUCUCCAg -3'
miRNA:   3'- -UAUGUCGCGUCUCUCGUGGCAGAGGU- -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.