miRNA display CGI


Results 21 - 36 of 36 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
3126 3' -57.2 NC_001493.1 + 55085 0.68 0.754869
Target:  5'- gCgAGCUCCGggcuggucggcuCAUcCGAGAacugugaugGUGGCGGCg -3'
miRNA:   3'- gGgUCGAGGC------------GUA-GCUCU---------CACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 95835 0.68 0.725741
Target:  5'- uCCCcGCUCCcgaggaacGuCGUCGGGGGUGGCu-- -3'
miRNA:   3'- -GGGuCGAGG--------C-GUAGCUCUCACCGucg -5'
3126 3' -57.2 NC_001493.1 + 66020 0.69 0.694886
Target:  5'- -aCGGCgaccgCCGCGUCGAuaaacuccggaggGAGUgggacaccGGCAGCa -3'
miRNA:   3'- ggGUCGa----GGCGUAGCU-------------CUCA--------CCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 90078 0.7 0.634991
Target:  5'- aCgAGCUCCcCca-GAGGGUGGUAGCc -3'
miRNA:   3'- gGgUCGAGGcGuagCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 60080 0.7 0.611528
Target:  5'- aCCGGUgaCCGUgacggguuggcgagGUCGAGGGUGGUGGUu -3'
miRNA:   3'- gGGUCGa-GGCG--------------UAGCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 57785 0.72 0.504742
Target:  5'- aCCCGGUUCaGUAUCGAGGG-GGCGu- -3'
miRNA:   3'- -GGGUCGAGgCGUAGCUCUCaCCGUcg -5'
3126 3' -57.2 NC_001493.1 + 90991 0.72 0.504742
Target:  5'- gCCGGCUCCGaGUCGAGAGgccGUucgAGCa -3'
miRNA:   3'- gGGUCGAGGCgUAGCUCUCac-CG---UCG- -5'
3126 3' -57.2 NC_001493.1 + 29697 0.72 0.495127
Target:  5'- cCCCuggAGCUCCGCAacgCGAcucucGAGcUGGCGGUu -3'
miRNA:   3'- -GGG---UCGAGGCGUa--GCU-----CUC-ACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 8263 0.74 0.40421
Target:  5'- aCCCGcGCUCCaGCAcCGAuGGGUGGgAGCc -3'
miRNA:   3'- -GGGU-CGAGG-CGUaGCU-CUCACCgUCG- -5'
3126 3' -57.2 NC_001493.1 + 123817 0.74 0.40421
Target:  5'- aCCCGcGCUCCaGCAcCGAuGGGUGGgAGCc -3'
miRNA:   3'- -GGGU-CGAGG-CGUaGCU-CUCACCgUCG- -5'
3126 3' -57.2 NC_001493.1 + 121347 1.1 0.001753
Target:  5'- aCCCAGCUCCGCAUCGAGAGUGGUAGCu -3'
miRNA:   3'- -GGGUCGAGGCGUAGCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 5793 1.1 0.001753
Target:  5'- aCCCAGCUCCGCAUCGAGAGUGGUAGCu -3'
miRNA:   3'- -GGGUCGAGGCGUAGCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 121234 1.1 0.001753
Target:  5'- aCCAGCUCCGCAUCGAGAGUGGCAGCu -3'
miRNA:   3'- gGGUCGAGGCGUAGCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 5680 1.1 0.001753
Target:  5'- aCCAGCUCCGCAUCGAGAGUGGCAGCu -3'
miRNA:   3'- gGGUCGAGGCGUAGCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 121432 1.13 0.001007
Target:  5'- aCCCAGCUCCGCAUCGAGAGUGGCAGCu -3'
miRNA:   3'- -GGGUCGAGGCGUAGCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 5878 1.13 0.001007
Target:  5'- aCCCAGCUCCGCAUCGAGAGUGGCAGCu -3'
miRNA:   3'- -GGGUCGAGGCGUAGCUCUCACCGUCG- -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.