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
31780 3' -53.2 NC_006938.1 + 25232 0.67 0.774397
Target:  5'- ---cGGGCcuUCUCuUCAGUGAgCuGCUGg -3'
miRNA:   3'- caaaCCCG--AGAGcAGUCACU-GuCGAC- -5'
31780 3' -53.2 NC_006938.1 + 45094 0.68 0.721642
Target:  5'- ---gGGGCgaugucCUCGUCGcggGACGGCUGc -3'
miRNA:   3'- caaaCCCGa-----GAGCAGUca-CUGUCGAC- -5'
31780 3' -53.2 NC_006938.1 + 25922 0.68 0.710767
Target:  5'- --cUGGGCggcaaaCUCGUCAcgcuccuuGUGAgGGCUGc -3'
miRNA:   3'- caaACCCGa-----GAGCAGU--------CACUgUCGAC- -5'
31780 3' -53.2 NC_006938.1 + 23952 0.69 0.678819
Target:  5'- --cUGGGCUCggcugugauggucagCGUgcCAGUGGCGGCg- -3'
miRNA:   3'- caaACCCGAGa--------------GCA--GUCACUGUCGac -5'
31780 3' -53.2 NC_006938.1 + 51477 0.7 0.621865
Target:  5'- ---cGGGUUCUCGUCggcGGUGAC-GCg- -3'
miRNA:   3'- caaaCCCGAGAGCAG---UCACUGuCGac -5'
31780 3' -53.2 NC_006938.1 + 1241 1.08 0.002018
Target:  5'- uGUUUGGGCUCUCGUCAGUGACAGCUGu -3'
miRNA:   3'- -CAAACCCGAGAGCAGUCACUGUCGAC- -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.