miRNA display CGI


Results 1 - 20 of 45 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
11979 3' -61.8 NC_003278.1 + 21530 0.66 0.2625
Target:  5'- uCAGCGCgggccgUCAGGcuguCGCcGGCCUCGACg -3'
miRNA:   3'- -GUCGCG------GGUCCc---GCGaCUGGAGCUGg -5'
11979 3' -61.8 NC_003278.1 + 21455 0.68 0.197426
Target:  5'- cCGGCcugGCCCAGGGC-CUcGGCgC-CGGCCa -3'
miRNA:   3'- -GUCG---CGGGUCCCGcGA-CUG-GaGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 19366 0.68 0.21758
Target:  5'- gCGGCGCCCuGGagcaggucagcaccGCGCUGGCCgcgcaacaGGCa -3'
miRNA:   3'- -GUCGCGGGuCC--------------CGCGACUGGag------CUGg -5'
11979 3' -61.8 NC_003278.1 + 29200 0.68 0.219289
Target:  5'- cCAGUGCCCAGGuCGCggcGGCCagCGAg- -3'
miRNA:   3'- -GUCGCGGGUCCcGCGa--CUGGa-GCUgg -5'
11979 3' -61.8 NC_003278.1 + 20040 0.67 0.237015
Target:  5'- uGGCaGCCgC-GGGCGacaugGACCUCGGCg -3'
miRNA:   3'- gUCG-CGG-GuCCCGCga---CUGGAGCUGg -5'
11979 3' -61.8 NC_003278.1 + 5900 0.67 0.237015
Target:  5'- -cGUGaCCCGGgccuGGUGgUGAuCCUCGGCCg -3'
miRNA:   3'- guCGC-GGGUC----CCGCgACU-GGAGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 26592 0.67 0.246951
Target:  5'- uCGGCGCCUAcccuGGcggacgcgaauGCGCcgccgcccgccugGGCCUCGACCu -3'
miRNA:   3'- -GUCGCGGGU----CC-----------CGCGa------------CUGGAGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 9612 0.67 0.249489
Target:  5'- gCAGCuGCgCCA-GGCGCUGGCCauccgcgaacgcUUGAUCg -3'
miRNA:   3'- -GUCG-CG-GGUcCCGCGACUGG------------AGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 31752 0.67 0.255926
Target:  5'- cCGGUGUCCcGGGCacccuGCUgGACCUguucacccgCGACCa -3'
miRNA:   3'- -GUCGCGGGuCCCG-----CGA-CUGGA---------GCUGG- -5'
11979 3' -61.8 NC_003278.1 + 9136 0.68 0.192266
Target:  5'- gCAGCGCCUGGGcuacgucagcGUGCaGGCCUUcGCCg -3'
miRNA:   3'- -GUCGCGGGUCC----------CGCGaCUGGAGcUGG- -5'
11979 3' -61.8 NC_003278.1 + 3257 0.69 0.181813
Target:  5'- aCAGuCGCCCuugcugcAGGGCGUcaUGACUuacgUCGAUCu -3'
miRNA:   3'- -GUC-GCGGG-------UCCCGCG--ACUGG----AGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 29559 0.69 0.172329
Target:  5'- aAGgGCCUGGuGGCGCUGGCauucuggUUCGGCUc -3'
miRNA:   3'- gUCgCGGGUC-CCGCGACUG-------GAGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 20284 0.73 0.084172
Target:  5'- uGGCGUCCAGGGCaGCaUGgccggcACCUCGAUg -3'
miRNA:   3'- gUCGCGGGUCCCG-CG-AC------UGGAGCUGg -5'
11979 3' -61.8 NC_003278.1 + 13194 0.72 0.098011
Target:  5'- aGGcCGCCCAGGGCaacggcagcgccccgGCgGACCUgcUGGCCa -3'
miRNA:   3'- gUC-GCGGGUCCCG---------------CGaCUGGA--GCUGG- -5'
11979 3' -61.8 NC_003278.1 + 8758 0.72 0.114615
Target:  5'- uGGcCGCCCucGGcGGCGCUGACUgcUCGcACCu -3'
miRNA:   3'- gUC-GCGGG--UC-CCGCGACUGG--AGC-UGG- -5'
11979 3' -61.8 NC_003278.1 + 21686 0.71 0.120823
Target:  5'- cCAGCGCCCc-GGCGCaGGCCaucaccaUCGACa -3'
miRNA:   3'- -GUCGCGGGucCCGCGaCUGG-------AGCUGg -5'
11979 3' -61.8 NC_003278.1 + 19957 0.71 0.135296
Target:  5'- aAGUGCCCAGGGC-CaGuacuuCCUgGGCCg -3'
miRNA:   3'- gUCGCGGGUCCCGcGaCu----GGAgCUGG- -5'
11979 3' -61.8 NC_003278.1 + 21236 0.7 0.139061
Target:  5'- cCGGCGUCCuGGGCuacCUGGgCaUCGACCu -3'
miRNA:   3'- -GUCGCGGGuCCCGc--GACUgG-AGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 2538 0.7 0.157644
Target:  5'- aUAGCGCCCAGgccagaucGGCG-UGGCCgguguugucguugCGGCCg -3'
miRNA:   3'- -GUCGCGGGUC--------CCGCgACUGGa------------GCUGG- -5'
11979 3' -61.8 NC_003278.1 + 14235 0.69 0.163731
Target:  5'- -cGCGCCCGGcGaGacgGCUGACCccauccccUCGGCCg -3'
miRNA:   3'- guCGCGGGUC-C-Cg--CGACUGG--------AGCUGG- -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.