miRNA display CGI


Results 1 - 15 of 15 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
16056 5' -60.3 NC_004065.1 + 112232 0.66 0.845249
Target:  5'- -gUCCGacGGGGUgaccgaUGAUGUCuCGGCCCu -3'
miRNA:   3'- agAGGU--CCCCGa-----GCUACAG-GUCGGGc -5'
16056 5' -60.3 NC_004065.1 + 122605 0.66 0.837569
Target:  5'- -aUCCAGGGcaGCaCGAgGUcCCAGUCCGa -3'
miRNA:   3'- agAGGUCCC--CGaGCUaCA-GGUCGGGC- -5'
16056 5' -60.3 NC_004065.1 + 35229 0.66 0.829721
Target:  5'- -gUUCAGGGGCUCGAcGaUC-GCCCu -3'
miRNA:   3'- agAGGUCCCCGAGCUaCaGGuCGGGc -5'
16056 5' -60.3 NC_004065.1 + 201441 0.66 0.829721
Target:  5'- gCUCCuggucggguGGGGGCUCGAg--CCGGacgcucCCCGc -3'
miRNA:   3'- aGAGG---------UCCCCGAGCUacaGGUC------GGGC- -5'
16056 5' -60.3 NC_004065.1 + 97178 0.66 0.82252
Target:  5'- gUUCCAcuucGGGGCUCGucgucgcgcugcgccUGUaggCCAGCCUGg -3'
miRNA:   3'- aGAGGU----CCCCGAGCu--------------ACA---GGUCGGGC- -5'
16056 5' -60.3 NC_004065.1 + 140367 0.66 0.81355
Target:  5'- gUCUCCAuuGGGGaUUCcGUGUCgGucGCCCGg -3'
miRNA:   3'- -AGAGGU--CCCC-GAGcUACAGgU--CGGGC- -5'
16056 5' -60.3 NC_004065.1 + 154626 0.66 0.80524
Target:  5'- cUCUUCGGGGGCguc-UG-CCAGCaCCGc -3'
miRNA:   3'- -AGAGGUCCCCGagcuACaGGUCG-GGC- -5'
16056 5' -60.3 NC_004065.1 + 170095 0.67 0.788207
Target:  5'- gCUCCGGGaacgcgaugGGCUCGGUGaaCCuGCCgGg -3'
miRNA:   3'- aGAGGUCC---------CCGAGCUACa-GGuCGGgC- -5'
16056 5' -60.3 NC_004065.1 + 93962 0.67 0.788207
Target:  5'- uUCUCCgAGcGGCUCGAUGcUCC-GUUCGg -3'
miRNA:   3'- -AGAGG-UCcCCGAGCUAC-AGGuCGGGC- -5'
16056 5' -60.3 NC_004065.1 + 183084 0.67 0.761735
Target:  5'- gUUUCCcGGGuccacCUCGAUGUCCAGgUCGu -3'
miRNA:   3'- -AGAGGuCCCc----GAGCUACAGGUCgGGC- -5'
16056 5' -60.3 NC_004065.1 + 158821 0.68 0.696736
Target:  5'- aCUUCAGGaGGCUCGucuucagcagcUGcgcgucaaaaUCCAGCCCGu -3'
miRNA:   3'- aGAGGUCC-CCGAGCu----------AC----------AGGUCGGGC- -5'
16056 5' -60.3 NC_004065.1 + 96332 0.74 0.370515
Target:  5'- cUUCCAGGGucucguGCUCGAUG-CCGGCCUu -3'
miRNA:   3'- aGAGGUCCC------CGAGCUACaGGUCGGGc -5'
16056 5' -60.3 NC_004065.1 + 189082 0.74 0.369749
Target:  5'- cCUgCGGGGGCUCGAggaccucgcccggUGUCUcugugcucagGGCCCGg -3'
miRNA:   3'- aGAgGUCCCCGAGCU-------------ACAGG----------UCGGGC- -5'
16056 5' -60.3 NC_004065.1 + 84214 0.88 0.054872
Target:  5'- --gUCAGGGGCUCGAaGUCCGGCCCGa -3'
miRNA:   3'- agaGGUCCCCGAGCUaCAGGUCGGGC- -5'
16056 5' -60.3 NC_004065.1 + 83659 1.09 0.001894
Target:  5'- uUCUCCAGGGGCUCGAUGUCCAGCCCGa -3'
miRNA:   3'- -AGAGGUCCCCGAGCUACAGGUCGGGC- -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.