miRNA display CGI


Results 1 - 7 of 7 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
31748 5' -61.7 NC_006938.1 + 2056 0.66 0.399771
Target:  5'- cGCUgACGCGagGGGCCgGUUCUa-- -3'
miRNA:   3'- uCGGgUGCGCagCCCGGaCGAGGaac -5'
31748 5' -61.7 NC_006938.1 + 17382 0.66 0.39802
Target:  5'- aGGCCCGCGCGcggaaacuccaGGGgCUGCgagCCg-- -3'
miRNA:   3'- -UCGGGUGCGCag---------CCCgGACGa--GGaac -5'
31748 5' -61.7 NC_006938.1 + 46177 0.67 0.341514
Target:  5'- cAGCCCcuggaguuuccGCGCG-CGGGCCUGaccaaccgaUCCg-- -3'
miRNA:   3'- -UCGGG-----------UGCGCaGCCCGGACg--------AGGaac -5'
31748 5' -61.7 NC_006938.1 + 30746 0.71 0.189646
Target:  5'- cGGCCagcUugGCGggguugucGGCCUGCUCCUUGa -3'
miRNA:   3'- -UCGG---GugCGCagc-----CCGGACGAGGAAC- -5'
31748 5' -61.7 NC_006938.1 + 22861 0.73 0.134956
Target:  5'- aAGUCCGCGCGgCGGGCCagcgUGCUgaUCUUGu -3'
miRNA:   3'- -UCGGGUGCGCaGCCCGG----ACGA--GGAAC- -5'
31748 5' -61.7 NC_006938.1 + 22740 0.78 0.059607
Target:  5'- cGCCUugGC-UCGGGCgUGCUUCUUGg -3'
miRNA:   3'- uCGGGugCGcAGCCCGgACGAGGAAC- -5'
31748 5' -61.7 NC_006938.1 + 32781 1.08 0.000318
Target:  5'- gAGCCCACGCGUCGGGCCUGCUCCUUGa -3'
miRNA:   3'- -UCGGGUGCGCAGCCCGGACGAGGAAC- -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.