miRNA display CGI


Results 1 - 12 of 12 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
14661 3' -56.2 NC_003525.1 + 26335 0.66 0.62177
Target:  5'- cGCCGCCugcUGGCGUg-ACAaaCCGGCAu -3'
miRNA:   3'- -CGGCGGu--ACCGUAagUGUc-GGUCGUu -5'
14661 3' -56.2 NC_003525.1 + 58645 0.66 0.599539
Target:  5'- gGCUgGCC-UGGCAaUCACAGUUGGCu- -3'
miRNA:   3'- -CGG-CGGuACCGUaAGUGUCGGUCGuu -5'
14661 3' -56.2 NC_003525.1 + 59524 0.66 0.599539
Target:  5'- cGuuGCCGcUGGUuacCGCAGCCuGCGGa -3'
miRNA:   3'- -CggCGGU-ACCGuaaGUGUCGGuCGUU- -5'
14661 3' -56.2 NC_003525.1 + 17712 0.67 0.588462
Target:  5'- cGCCGCCAUcuGUuuGUUCGCAGCCu-CAAu -3'
miRNA:   3'- -CGGCGGUAc-CG--UAAGUGUCGGucGUU- -5'
14661 3' -56.2 NC_003525.1 + 35913 0.67 0.588462
Target:  5'- aGCgCGCCGcUGGCAUUCGCAucaaaagagGUgAGUAAu -3'
miRNA:   3'- -CG-GCGGU-ACCGUAAGUGU---------CGgUCGUU- -5'
14661 3' -56.2 NC_003525.1 + 48249 0.68 0.491418
Target:  5'- aGgUGCUAUGGCAUggUCaACGGCUGGCGc -3'
miRNA:   3'- -CgGCGGUACCGUA--AG-UGUCGGUCGUu -5'
14661 3' -56.2 NC_003525.1 + 35787 0.68 0.491418
Target:  5'- cGCCGCCAUaccGGUAUU-GCAGCggcacgacgagCAGCAAa -3'
miRNA:   3'- -CGGCGGUA---CCGUAAgUGUCG-----------GUCGUU- -5'
14661 3' -56.2 NC_003525.1 + 38972 0.69 0.450654
Target:  5'- uUCGCCAgacGGCAUUUAaaggugauGCCAGCGAu -3'
miRNA:   3'- cGGCGGUa--CCGUAAGUgu------CGGUCGUU- -5'
14661 3' -56.2 NC_003525.1 + 3183 0.69 0.440754
Target:  5'- cGCCGCCAgGGCAcaUGCAGCU-GCAc -3'
miRNA:   3'- -CGGCGGUaCCGUaaGUGUCGGuCGUu -5'
14661 3' -56.2 NC_003525.1 + 56478 0.71 0.332461
Target:  5'- -aCGCCAuaacauacUGGU--UCGCAGCCAGCGc -3'
miRNA:   3'- cgGCGGU--------ACCGuaAGUGUCGGUCGUu -5'
14661 3' -56.2 NC_003525.1 + 6821 0.8 0.0827
Target:  5'- gGCUGCCGUGGCAUUCAgCcGCCAGUc- -3'
miRNA:   3'- -CGGCGGUACCGUAAGU-GuCGGUCGuu -5'
14661 3' -56.2 NC_003525.1 + 20206 1.08 0.000841
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.