miRNA display CGI


Results 1 - 20 of 50 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
21214 5' -60.1 NC_004778.3 + 95032 0.66 0.723302
Target:  5'- -cGCCGCGCUGCCggagCAGCCCggCCAc- -3'
miRNA:   3'- gcUGGUGCGGCGGga--GUUGGG--GGUug -5'
21214 5' -60.1 NC_004778.3 + 47594 0.67 0.613813
Target:  5'- -uACCGcCGCCGCUCcCGAUCCgCCAAUg -3'
miRNA:   3'- gcUGGU-GCGGCGGGaGUUGGG-GGUUG- -5'
21214 5' -60.1 NC_004778.3 + 56931 0.68 0.573854
Target:  5'- gCGuCCGCGUCGUCgacgCUCAACgCCaCCGACg -3'
miRNA:   3'- -GCuGGUGCGGCGG----GAGUUG-GG-GGUUG- -5'
21214 5' -60.1 NC_004778.3 + 86948 1.1 0.000924
Target:  5'- cCGACCACGCCGCCCUCAACCCCCAACg -3'
miRNA:   3'- -GCUGGUGCGGCGGGAGUUGGGGGUUG- -5'
21214 5' -60.1 NC_004778.3 + 100790 0.66 0.703745
Target:  5'- uCGGCCgcaaaACGgUGCCCUUcg-CCCCGACa -3'
miRNA:   3'- -GCUGG-----UGCgGCGGGAGuugGGGGUUG- -5'
21214 5' -60.1 NC_004778.3 + 100091 0.66 0.703745
Target:  5'- gCGugUACaGCCGCUUggcGCaCCCCAGCg -3'
miRNA:   3'- -GCugGUG-CGGCGGGaguUG-GGGGUUG- -5'
21214 5' -60.1 NC_004778.3 + 39107 0.66 0.693874
Target:  5'- uGuuCAUGCCGCgCCUUAAUuacaaCCCGACg -3'
miRNA:   3'- gCugGUGCGGCG-GGAGUUGg----GGGUUG- -5'
21214 5' -60.1 NC_004778.3 + 33666 0.66 0.683954
Target:  5'- gCGGCCggcGCGCUGCCgCgcggaUAGCgCCCGGCg -3'
miRNA:   3'- -GCUGG---UGCGGCGG-Ga----GUUGgGGGUUG- -5'
21214 5' -60.1 NC_004778.3 + 57968 0.67 0.65398
Target:  5'- aCGcCCcCGCCGacaCCCUCGccuacGCCCCCGccgACa -3'
miRNA:   3'- -GCuGGuGCGGC---GGGAGU-----UGGGGGU---UG- -5'
21214 5' -60.1 NC_004778.3 + 80059 0.67 0.623853
Target:  5'- gCGGCgCugGCCgGCCC-CAACuaCCUCGACu -3'
miRNA:   3'- -GCUG-GugCGG-CGGGaGUUG--GGGGUUG- -5'
21214 5' -60.1 NC_004778.3 + 41236 0.67 0.643944
Target:  5'- gCGGCCGCGCCGg---CAACCCCa--- -3'
miRNA:   3'- -GCUGGUGCGGCgggaGUUGGGGguug -5'
21214 5' -60.1 NC_004778.3 + 58016 0.67 0.65398
Target:  5'- aCGcCCcCGCCGacaCCCUCGccuacGCCCCCGccgACa -3'
miRNA:   3'- -GCuGGuGCGGC---GGGAGU-----UGGGGGU---UG- -5'
21214 5' -60.1 NC_004778.3 + 4091 0.66 0.723302
Target:  5'- aGAUCGCGCaGCCCgu-ACUuauaCCCAGCg -3'
miRNA:   3'- gCUGGUGCGgCGGGaguUGG----GGGUUG- -5'
21214 5' -60.1 NC_004778.3 + 17616 0.67 0.643944
Target:  5'- uGACUauACGgCGCCCUC-GCCCuuguuaCCGGCg -3'
miRNA:   3'- gCUGG--UGCgGCGGGAGuUGGG------GGUUG- -5'
21214 5' -60.1 NC_004778.3 + 59177 0.66 0.722331
Target:  5'- gCGGCCGCGCaCGCCgUCcaguuuaAAUgCCCAc- -3'
miRNA:   3'- -GCUGGUGCG-GCGGgAG-------UUGgGGGUug -5'
21214 5' -60.1 NC_004778.3 + 97950 0.67 0.663999
Target:  5'- uGGCCGCGCauuuGCgCUCAGCCaaauaaUCGGCg -3'
miRNA:   3'- gCUGGUGCGg---CGgGAGUUGGg-----GGUUG- -5'
21214 5' -60.1 NC_004778.3 + 27198 0.67 0.633899
Target:  5'- uCGGCCuguAUGCCGCCCauguUCAugacgGCCUCgAACg -3'
miRNA:   3'- -GCUGG---UGCGGCGGG----AGU-----UGGGGgUUG- -5'
21214 5' -60.1 NC_004778.3 + 102635 0.68 0.573854
Target:  5'- --cCCGCGCgGCCCagCAACCUCUAucGCa -3'
miRNA:   3'- gcuGGUGCGgCGGGa-GUUGGGGGU--UG- -5'
21214 5' -60.1 NC_004778.3 + 91055 0.66 0.703745
Target:  5'- uCGugCACGCCGCC---GACCCgCGu- -3'
miRNA:   3'- -GCugGUGCGGCGGgagUUGGGgGUug -5'
21214 5' -60.1 NC_004778.3 + 64974 0.66 0.703745
Target:  5'- uCGGCauuCGCCGgCCUCGGCgUCgAACg -3'
miRNA:   3'- -GCUGgu-GCGGCgGGAGUUGgGGgUUG- -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.