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
15341 5' -55 NC_003876.1 + 3249 1.09 0.00003
Target:  5'- gGAGAGCACCCAGACGCGAACCGUUGGc -3'
miRNA:   3'- -CUCUCGUGGGUCUGCGCUUGGCAACC- -5'
15341 5' -55 NC_003876.1 + 3250 0.72 0.049327
Target:  5'- cGAGAGCAauguccuUCUAGGC-CGAGCCGcUGGg -3'
miRNA:   3'- -CUCUCGU-------GGGUCUGcGCUUGGCaACC- -5'
15341 5' -55 NC_003876.1 + 3828 0.66 0.129252
Target:  5'- uGGAGaCACCggcaCGGGCGCGAgcgGCCGUa-- -3'
miRNA:   3'- cUCUC-GUGG----GUCUGCGCU---UGGCAacc -5'
15341 5' -55 NC_003876.1 + 4456 0.68 0.092204
Target:  5'- aGGGAGgACCacaAGaagcuGCGCGAauuGCUGUUGGg -3'
miRNA:   3'- -CUCUCgUGGg--UC-----UGCGCU---UGGCAACC- -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.