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
20985 3' -63.2 NC_004735.1 + 103436 0.66 0.599133
Target:  5'- aCgGCgGCUCCgauCAgCGGAGUCAGcCCCu -3'
miRNA:   3'- -GgCG-CGAGG---GUgGCCUCGGUCuGGGc -5'
20985 3' -63.2 NC_004735.1 + 10046 0.66 0.551006
Target:  5'- aUC-CGUUCCCACCGGuacaaccgGGUCAGACUUu -3'
miRNA:   3'- -GGcGCGAGGGUGGCC--------UCGGUCUGGGc -5'
20985 3' -63.2 NC_004735.1 + 56924 0.66 0.548152
Target:  5'- aCGCGCcaucauaccguauaUCCCGUCaGGAGCCGGAUCg- -3'
miRNA:   3'- gGCGCG--------------AGGGUGG-CCUCGGUCUGGgc -5'
20985 3' -63.2 NC_004735.1 + 117039 0.67 0.532069
Target:  5'- cCCGUGaUCCCGcaaaucCCGGuGCCGGAUUCa -3'
miRNA:   3'- -GGCGCgAGGGU------GGCCuCGGUCUGGGc -5'
20985 3' -63.2 NC_004735.1 + 126529 0.71 0.33115
Target:  5'- uCCGCGCUacaACCGGAucGUCGGugCCGu -3'
miRNA:   3'- -GGCGCGAgggUGGCCU--CGGUCugGGC- -5'
20985 3' -63.2 NC_004735.1 + 1074 0.76 0.143592
Target:  5'- aCGCGCUUCCACUGGuGCUugacGAUCCGg -3'
miRNA:   3'- gGCGCGAGGGUGGCCuCGGu---CUGGGC- -5'
20985 3' -63.2 NC_004735.1 + 29129 0.98 0.004331
Target:  5'- gCCGCGCUCCCACCGGAG-CAGACCCGu -3'
miRNA:   3'- -GGCGCGAGGGUGGCCUCgGUCUGGGC- -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.