miRNA display CGI


Results 1 - 20 of 22 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
7316 3' -59.4 NC_001900.1 + 13017 0.66 0.477097
Target:  5'- uCAGCGGCggcgGCgagGGCUGAGCcuaacuugacauccaCCgGGAGGg -3'
miRNA:   3'- -GUCGCCGa---CGa--CUGGCUUG---------------GG-CCUCU- -5'
7316 3' -59.4 NC_001900.1 + 16573 0.66 0.473113
Target:  5'- -cGUGaGCUGaaGACCGA-UCUGGAGAa -3'
miRNA:   3'- guCGC-CGACgaCUGGCUuGGGCCUCU- -5'
7316 3' -59.4 NC_001900.1 + 23127 0.66 0.473113
Target:  5'- uGGuCGGCc-CUGACCGGgcgcaGCCCGGGcGAg -3'
miRNA:   3'- gUC-GCCGacGACUGGCU-----UGGGCCU-CU- -5'
7316 3' -59.4 NC_001900.1 + 37081 0.67 0.424819
Target:  5'- aCGGUGGCcgUGCgucgaGAUCcAGCCCGGAGc -3'
miRNA:   3'- -GUCGCCG--ACGa----CUGGcUUGGGCCUCu -5'
7316 3' -59.4 NC_001900.1 + 23002 0.67 0.40634
Target:  5'- cCAGgGcGCUcgucagaccGUUGACCaGAGCCUGGGGGa -3'
miRNA:   3'- -GUCgC-CGA---------CGACUGG-CUUGGGCCUCU- -5'
7316 3' -59.4 NC_001900.1 + 3009 0.67 0.397292
Target:  5'- -cGCacuGCUGCUGACCGAAggcgaCCGGcGAc -3'
miRNA:   3'- guCGc--CGACGACUGGCUUg----GGCCuCU- -5'
7316 3' -59.4 NC_001900.1 + 808 0.67 0.393709
Target:  5'- cCAGCGGCUGCgguagacguuccaGACCGcugcGGCCCGuGGc- -3'
miRNA:   3'- -GUCGCCGACGa------------CUGGC----UUGGGC-CUcu -5'
7316 3' -59.4 NC_001900.1 + 31790 0.67 0.379589
Target:  5'- aGGUGGCUGUgaACCaGAACCugcgguCGGAGAa -3'
miRNA:   3'- gUCGCCGACGacUGG-CUUGG------GCCUCU- -5'
7316 3' -59.4 NC_001900.1 + 26000 0.67 0.379589
Target:  5'- aCAGCGGUauucaUGACC--GCCCGGAGu -3'
miRNA:   3'- -GUCGCCGacg--ACUGGcuUGGGCCUCu -5'
7316 3' -59.4 NC_001900.1 + 39829 0.67 0.378718
Target:  5'- -cGaCGGCuuccacucauggaUGCUGGCUG-ACCCGGAGc -3'
miRNA:   3'- guC-GCCG-------------ACGACUGGCuUGGGCCUCu -5'
7316 3' -59.4 NC_001900.1 + 40810 0.67 0.377848
Target:  5'- -cGCGGCgcugacgacaucGCUGACCGcugGGCuuGGGGGa -3'
miRNA:   3'- guCGCCGa-----------CGACUGGC---UUGggCCUCU- -5'
7316 3' -59.4 NC_001900.1 + 2215 0.68 0.354044
Target:  5'- aAGUGGggugGCUGGgaGGGCCUGGAGAu -3'
miRNA:   3'- gUCGCCga--CGACUggCUUGGGCCUCU- -5'
7316 3' -59.4 NC_001900.1 + 40194 0.68 0.354044
Target:  5'- -cGCGGCUGCUGGCCagGAACaCCa---- -3'
miRNA:   3'- guCGCCGACGACUGG--CUUG-GGccucu -5'
7316 3' -59.4 NC_001900.1 + 33156 0.69 0.321912
Target:  5'- uGGCGGCaGCaaGCCGAACuCCGGuGGc -3'
miRNA:   3'- gUCGCCGaCGacUGGCUUG-GGCCuCU- -5'
7316 3' -59.4 NC_001900.1 + 6581 0.69 0.314228
Target:  5'- uGGCuGGCcaGCgGGCCGAGCUgGGGGAc -3'
miRNA:   3'- gUCG-CCGa-CGaCUGGCUUGGgCCUCU- -5'
7316 3' -59.4 NC_001900.1 + 34834 0.69 0.306683
Target:  5'- aCGGCGGUgcGCUGACCGGuCUCgaugcgauGGAGAu -3'
miRNA:   3'- -GUCGCCGa-CGACUGGCUuGGG--------CCUCU- -5'
7316 3' -59.4 NC_001900.1 + 34313 0.69 0.299277
Target:  5'- uCAGCGGUcGCUGAuCCGAagAgCCGaGAGGu -3'
miRNA:   3'- -GUCGCCGaCGACU-GGCU--UgGGC-CUCU- -5'
7316 3' -59.4 NC_001900.1 + 1011 0.69 0.292011
Target:  5'- -cGCGGUUGCUugcGAUCGAGgaguuCCUGGAGGc -3'
miRNA:   3'- guCGCCGACGA---CUGGCUU-----GGGCCUCU- -5'
7316 3' -59.4 NC_001900.1 + 43557 0.69 0.284883
Target:  5'- aGGCGGCgcaccgaGCUGGCCGGccgauccaugACgCGGGGGu -3'
miRNA:   3'- gUCGCCGa------CGACUGGCU----------UGgGCCUCU- -5'
7316 3' -59.4 NC_001900.1 + 13453 0.71 0.226838
Target:  5'- -cGCGGUgcUGCgucugGugCGuAACCCGGAGGg -3'
miRNA:   3'- guCGCCG--ACGa----CugGC-UUGGGCCUCU- -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.