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
78 5' -52.3 AC_000005.1 + 29978 0.66 0.712828
Target:  5'- cGGCA-GAUCCGUUaaugGUGAGCuccgauggguugggaAUAAGUGu -3'
miRNA:   3'- -CCGUcCUAGGCGA----UACUCG---------------UGUUCAC- -5'
78 5' -52.3 AC_000005.1 + 20186 0.68 0.631485
Target:  5'- uGGCGGGGUaaGCUugucccucccgcauaGUGGGCcCAGGUa -3'
miRNA:   3'- -CCGUCCUAggCGA---------------UACUCGuGUUCAc -5'
78 5' -52.3 AC_000005.1 + 10316 1.12 0.000608
Target:  5'- cGGCAGGAUCCGCUAUGAGCACAAGUGa -3'
miRNA:   3'- -CCGUCCUAGGCGAUACUCGUGUUCAC- -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.