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
28381 3' -58.1 NC_005946.1 + 67883 0.66 0.723795
Target:  5'- gGACCUC-CGCCucggGGUAGUcaucGGCCUCGa -3'
miRNA:   3'- -CUGGAGaGCGG----UCGUCGu---CUGGAGUg -5'
28381 3' -58.1 NC_005946.1 + 58417 0.66 0.723795
Target:  5'- uGGCC-CUCGCCaaAGCcGUAGACggCGCa -3'
miRNA:   3'- -CUGGaGAGCGG--UCGuCGUCUGgaGUG- -5'
28381 3' -58.1 NC_005946.1 + 27922 0.66 0.723795
Target:  5'- cACgCUCUCGCCuGGCAuCcucuuGGGCCUCAUg -3'
miRNA:   3'- cUG-GAGAGCGG-UCGUcG-----UCUGGAGUG- -5'
28381 3' -58.1 NC_005946.1 + 10412 0.66 0.703367
Target:  5'- gGACCgC-CGCC-GCGuaGGACCUCGCc -3'
miRNA:   3'- -CUGGaGaGCGGuCGUcgUCUGGAGUG- -5'
28381 3' -58.1 NC_005946.1 + 99041 0.66 0.703367
Target:  5'- aGCCUCaauCCGGCGGgAGgaGCCUCGCg -3'
miRNA:   3'- cUGGAGagcGGUCGUCgUC--UGGAGUG- -5'
28381 3' -58.1 NC_005946.1 + 44001 0.66 0.682687
Target:  5'- uGACCUugcCUUGCCAGUAgGCAGACaugUCuGCg -3'
miRNA:   3'- -CUGGA---GAGCGGUCGU-CGUCUGg--AG-UG- -5'
28381 3' -58.1 NC_005946.1 + 20891 0.67 0.640874
Target:  5'- cGGCCUCagaCGCCcuGgAGCAGGCCgcCGCg -3'
miRNA:   3'- -CUGGAGa--GCGGu-CgUCGUCUGGa-GUG- -5'
28381 3' -58.1 NC_005946.1 + 48602 0.67 0.630381
Target:  5'- cGGCCUgCUCcUCGGCAGUcagGGACCUCu- -3'
miRNA:   3'- -CUGGA-GAGcGGUCGUCG---UCUGGAGug -5'
28381 3' -58.1 NC_005946.1 + 61242 0.67 0.619889
Target:  5'- cGGCCUg-UGCCuGGCGGCGGACgUCGa -3'
miRNA:   3'- -CUGGAgaGCGG-UCGUCGUCUGgAGUg -5'
28381 3' -58.1 NC_005946.1 + 48401 0.67 0.609406
Target:  5'- uGGCCUCcgcaUUGCCAGUGGUguAGGCCgucCACu -3'
miRNA:   3'- -CUGGAG----AGCGGUCGUCG--UCUGGa--GUG- -5'
28381 3' -58.1 NC_005946.1 + 49360 0.71 0.403344
Target:  5'- gGACCgggUCGUgAGUcaggaGGCAGGCCUCGCa -3'
miRNA:   3'- -CUGGag-AGCGgUCG-----UCGUCUGGAGUG- -5'
28381 3' -58.1 NC_005946.1 + 44566 1.09 0.000917
Target:  5'- gGACCUCUCGCCAGCAGCAGACCUCACg -3'
miRNA:   3'- -CUGGAGAGCGGUCGUCGUCUGGAGUG- -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.