miRNA display CGI


Results 1 - 20 of 24 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
12001 3' -54.4 NC_003278.1 + 8851 0.66 0.661452
Target:  5'- -cGGCGaCGAGGuCGGcguUCUgcaGCAGGUGCg -3'
miRNA:   3'- gcUCGC-GUUCCuGCU---AGG---CGUCUACG- -5'
12001 3' -54.4 NC_003278.1 + 14720 0.66 0.627306
Target:  5'- -aGGCGau-GGuGCGAUCCGCAGAc-- -3'
miRNA:   3'- gcUCGCguuCC-UGCUAGGCGUCUacg -5'
12001 3' -54.4 NC_003278.1 + 3204 0.66 0.615919
Target:  5'- aCGGGCcucgGCAucgaggauGGuGACGAUCUGgcgcCAGAUGCg -3'
miRNA:   3'- -GCUCG----CGU--------UC-CUGCUAGGC----GUCUACG- -5'
12001 3' -54.4 NC_003278.1 + 27679 0.67 0.604547
Target:  5'- uGGGUGUgcuGGGGGCGcuGUUugaGCAGGUGCg -3'
miRNA:   3'- gCUCGCG---UUCCUGC--UAGg--CGUCUACG- -5'
12001 3' -54.4 NC_003278.1 + 4448 0.67 0.604547
Target:  5'- uCGAGCGCGAcuGGAuCGA---GCAGAUGg -3'
miRNA:   3'- -GCUCGCGUU--CCU-GCUaggCGUCUACg -5'
12001 3' -54.4 NC_003278.1 + 29383 0.67 0.604547
Target:  5'- uGGGCGacguGGCGGUgCGCGGcgGCg -3'
miRNA:   3'- gCUCGCguucCUGCUAgGCGUCuaCG- -5'
12001 3' -54.4 NC_003278.1 + 30331 0.67 0.5932
Target:  5'- gGAGCGCcAGGACGccGUCaaCGCcGAcGCg -3'
miRNA:   3'- gCUCGCGuUCCUGC--UAG--GCGuCUaCG- -5'
12001 3' -54.4 NC_003278.1 + 10265 0.67 0.559409
Target:  5'- -aAGCGCcgcGAGGAUGG-CCGCuacGAUGUg -3'
miRNA:   3'- gcUCGCG---UUCCUGCUaGGCGu--CUACG- -5'
12001 3' -54.4 NC_003278.1 + 6017 0.67 0.559409
Target:  5'- aGaAGCGCAuGGGCGGccugCCGCcGGUGg -3'
miRNA:   3'- gC-UCGCGUuCCUGCUa---GGCGuCUACg -5'
12001 3' -54.4 NC_003278.1 + 21040 0.67 0.559409
Target:  5'- aCGAcGCGC-AGGGCGGUCaccaGCGGGc-- -3'
miRNA:   3'- -GCU-CGCGuUCCUGCUAGg---CGUCUacg -5'
12001 3' -54.4 NC_003278.1 + 21919 0.67 0.559409
Target:  5'- gCGGGCGCGcAGG-CGcgCCGCcuuGuUGCg -3'
miRNA:   3'- -GCUCGCGU-UCCuGCuaGGCGu--CuACG- -5'
12001 3' -54.4 NC_003278.1 + 27814 0.68 0.519617
Target:  5'- cCGAGUGCuGGuacGACGAUcgcuaccgcuauacgCCGCAGggGCu -3'
miRNA:   3'- -GCUCGCGuUC---CUGCUA---------------GGCGUCuaCG- -5'
12001 3' -54.4 NC_003278.1 + 7013 0.68 0.493715
Target:  5'- gGGGCGCGGGGuacgcuCGGUcaaCCGcCAGAgGCg -3'
miRNA:   3'- gCUCGCGUUCCu-----GCUA---GGC-GUCUaCG- -5'
12001 3' -54.4 NC_003278.1 + 7464 0.68 0.493715
Target:  5'- -cAGCGCu-GGGCGAUCCGCGa---- -3'
miRNA:   3'- gcUCGCGuuCCUGCUAGGCGUcuacg -5'
12001 3' -54.4 NC_003278.1 + 27964 0.69 0.483097
Target:  5'- --uGCGCAGuucgcGGAUcGUCCGgCAGAUGCc -3'
miRNA:   3'- gcuCGCGUU-----CCUGcUAGGC-GUCUACG- -5'
12001 3' -54.4 NC_003278.1 + 23226 0.69 0.471546
Target:  5'- gCGGcGCGCAGGGcgcucugGCGGUCgcUGUAGGUGUg -3'
miRNA:   3'- -GCU-CGCGUUCC-------UGCUAG--GCGUCUACG- -5'
12001 3' -54.4 NC_003278.1 + 28040 0.69 0.451931
Target:  5'- --uGCGCAAGGGCGAgugcCCGac-GUGCg -3'
miRNA:   3'- gcuCGCGUUCCUGCUa---GGCgucUACG- -5'
12001 3' -54.4 NC_003278.1 + 27181 0.7 0.402555
Target:  5'- gGAGCcgGUgAAGGugGcgCCGCAGA-GCg -3'
miRNA:   3'- gCUCG--CG-UUCCugCuaGGCGUCUaCG- -5'
12001 3' -54.4 NC_003278.1 + 30863 0.7 0.393096
Target:  5'- --cGCGCu-GGGCGAUCgGCAGcagGCg -3'
miRNA:   3'- gcuCGCGuuCCUGCUAGgCGUCua-CG- -5'
12001 3' -54.4 NC_003278.1 + 19505 0.71 0.348026
Target:  5'- uGAGCGCGcGGGugGGguugCCgGCGGcgGCc -3'
miRNA:   3'- gCUCGCGU-UCCugCUa---GG-CGUCuaCG- -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.