miRNA display CGI


Results 1 - 11 of 11 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
21966 3' -56.2 NC_004914.1 + 26238 0.66 0.626171
Target:  5'- cGCCGCCugcUGGCGUg-ACAaaCCGGCAu -3'
miRNA:   3'- -CGGCGGu--ACCGUAagUGUc-GGUCGUu -5'
21966 3' -56.2 NC_004914.1 + 59588 0.66 0.60395
Target:  5'- gGCUgGCC-UGGCAaUCACAGUUGGCu- -3'
miRNA:   3'- -CGG-CGGuACCGUaAGUGUCGGUCGuu -5'
21966 3' -56.2 NC_004914.1 + 17615 0.67 0.592872
Target:  5'- cGCCGCCAUcuGUuuGUUCGCAGCCu-CAAu -3'
miRNA:   3'- -CGGCGGUAc-CG--UAAGUGUCGGucGUU- -5'
21966 3' -56.2 NC_004914.1 + 36054 0.67 0.592872
Target:  5'- aGCgCGCCGcUGGCAUUCGCAucaaaagagGUgAGUAAu -3'
miRNA:   3'- -CG-GCGGU-ACCGUAAGUGU---------CGgUCGUU- -5'
21966 3' -56.2 NC_004914.1 + 48003 0.68 0.495673
Target:  5'- aGgUGCUAUGGCAUggUCaACGGCUGGCGc -3'
miRNA:   3'- -CgGCGGUACCGUA--AG-UGUCGGUCGUu -5'
21966 3' -56.2 NC_004914.1 + 35927 0.68 0.495673
Target:  5'- cGCCGCCAUaccGGUAUU-GCAGCggcacgacgagCAGCAAa -3'
miRNA:   3'- -CGGCGGUA---CCGUAAgUGUCG-----------GUCGUU- -5'
21966 3' -56.2 NC_004914.1 + 39113 0.69 0.454771
Target:  5'- uUCGCCAgacGGCAUUUAaaggugauGCCAGCGAu -3'
miRNA:   3'- cGGCGGUa--CCGUAAGUgu------CGGUCGUU- -5'
21966 3' -56.2 NC_004914.1 + 3183 0.69 0.444831
Target:  5'- cGCCGCCAgGGCAcaUGCAGCU-GCAc -3'
miRNA:   3'- -CGGCGGUaCCGUaaGUGUCGGuCGUu -5'
21966 3' -56.2 NC_004914.1 + 56113 0.71 0.335953
Target:  5'- -aCGCCAuaacauacUGGU--UCGCAGCCAGCGc -3'
miRNA:   3'- cgGCGGU--------ACCGuaAGUGUCGGUCGUu -5'
21966 3' -56.2 NC_004914.1 + 6822 0.8 0.083858
Target:  5'- gGCUGCCGUGGCAUUCAgCcGCCAGUc- -3'
miRNA:   3'- -CGGCGGUACCGUAAGU-GuCGGUCGuu -5'
21966 3' -56.2 NC_004914.1 + 20109 1.08 0.000857
Target:  5'- uGCCGCCAUGGCAUUCACAGCCAGCAAu -3'
miRNA:   3'- -CGGCGGUACCGUAAGUGUCGGUCGUU- -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.