miRNA display CGI


Results 1 - 20 of 25 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
32116 5' -59.8 NC_007016.1 + 105973 0.66 0.741247
Target:  5'- aCCgaAUGGGGCGGUccaUUUauaGUCGUCCGg -3'
miRNA:   3'- cGGg-UGCCCCGCCA---AAAa--CGGCGGGC- -5'
32116 5' -59.8 NC_007016.1 + 30869 0.66 0.735515
Target:  5'- uGCCCACcuaaaaGGGCGGccg-UGCCgggcgguggugcgcgGCCCa -3'
miRNA:   3'- -CGGGUGc-----CCCGCCaaaaACGG---------------CGGGc -5'
32116 5' -59.8 NC_007016.1 + 121236 0.66 0.731677
Target:  5'- --aCACGGGGCccaGGg----GCCGCgCCGa -3'
miRNA:   3'- cggGUGCCCCG---CCaaaaaCGGCG-GGC- -5'
32116 5' -59.8 NC_007016.1 + 130515 0.66 0.731677
Target:  5'- cGCCC-CGGGGcCGGcccc-GCCGaggcgcCCCGg -3'
miRNA:   3'- -CGGGuGCCCC-GCCaaaaaCGGC------GGGC- -5'
32116 5' -59.8 NC_007016.1 + 130118 0.66 0.722025
Target:  5'- cGCCCcgcuCGGGGgccCGGgg---GCCGCgCGg -3'
miRNA:   3'- -CGGGu---GCCCC---GCCaaaaaCGGCGgGC- -5'
32116 5' -59.8 NC_007016.1 + 61974 0.66 0.722025
Target:  5'- uUCCAcacacCGGGGgGGUg---GCCGCCa- -3'
miRNA:   3'- cGGGU-----GCCCCgCCAaaaaCGGCGGgc -5'
32116 5' -59.8 NC_007016.1 + 126240 0.66 0.712298
Target:  5'- cGCCgACcGGGUaccccGGgcacaUUUGCCGCCCu -3'
miRNA:   3'- -CGGgUGcCCCG-----CCaa---AAACGGCGGGc -5'
32116 5' -59.8 NC_007016.1 + 129971 0.67 0.692658
Target:  5'- gGCCCccgaGCGGGGCGccgccgGCCuccCCCGg -3'
miRNA:   3'- -CGGG----UGCCCCGCcaaaaaCGGc--GGGC- -5'
32116 5' -59.8 NC_007016.1 + 59308 0.67 0.683753
Target:  5'- cGCCCugGGGuuGGUgccaaucgucagGCgCGCCCc -3'
miRNA:   3'- -CGGGugCCCcgCCAaaaa--------CG-GCGGGc -5'
32116 5' -59.8 NC_007016.1 + 17548 0.67 0.660859
Target:  5'- cGCaCCACGGGGCaGGgcgcggcgGCgGCCa- -3'
miRNA:   3'- -CG-GGUGCCCCG-CCaaaaa---CGgCGGgc -5'
32116 5' -59.8 NC_007016.1 + 129897 0.67 0.652863
Target:  5'- cGCCCGgcCGGcGGCGGcgcgggGCCGCggCCGc -3'
miRNA:   3'- -CGGGU--GCC-CCGCCaaaaa-CGGCG--GGC- -5'
32116 5' -59.8 NC_007016.1 + 130261 0.67 0.652863
Target:  5'- aCCCG-GGGGCGGccccgGCCcCCCGc -3'
miRNA:   3'- cGGGUgCCCCGCCaaaaaCGGcGGGC- -5'
32116 5' -59.8 NC_007016.1 + 123419 0.67 0.642855
Target:  5'- cGCCCugGGGaGCGGg----GC-GCCgGg -3'
miRNA:   3'- -CGGGugCCC-CGCCaaaaaCGgCGGgC- -5'
32116 5' -59.8 NC_007016.1 + 67232 0.67 0.642855
Target:  5'- uGCCUguaGCGGGGuuGUUUUa-CCGCCCc -3'
miRNA:   3'- -CGGG---UGCCCCgcCAAAAacGGCGGGc -5'
32116 5' -59.8 NC_007016.1 + 118866 0.68 0.582893
Target:  5'- gGCgCGgGGGGCgcgccGGUUgcugUUGCCGCUCc -3'
miRNA:   3'- -CGgGUgCCCCG-----CCAAa---AACGGCGGGc -5'
32116 5' -59.8 NC_007016.1 + 10835 0.69 0.563105
Target:  5'- cGCCCuuUGGGGUGGUgacgUUUucgccaaccGCCGCgCCa -3'
miRNA:   3'- -CGGGu-GCCCCGCCAa---AAA---------CGGCG-GGc -5'
32116 5' -59.8 NC_007016.1 + 130235 0.69 0.563105
Target:  5'- gGCgCGCGGcucccgaugccgGGCGGcc---GCCGCCCGg -3'
miRNA:   3'- -CGgGUGCC------------CCGCCaaaaaCGGCGGGC- -5'
32116 5' -59.8 NC_007016.1 + 130208 0.69 0.53088
Target:  5'- gGCCCggcgcgcggcGCGGGGCGGccgggggcggcgGCCgcggGCCCGg -3'
miRNA:   3'- -CGGG----------UGCCCCGCCaaaaa-------CGG----CGGGC- -5'
32116 5' -59.8 NC_007016.1 + 80217 0.71 0.458669
Target:  5'- uGCCauaGUGGGGCGGUUUU--UCGCCCu -3'
miRNA:   3'- -CGGg--UGCCCCGCCAAAAacGGCGGGc -5'
32116 5' -59.8 NC_007016.1 + 22370 0.71 0.458669
Target:  5'- gGCagACGGGGCGGUgaUUGCgaGCCaCGa -3'
miRNA:   3'- -CGggUGCCCCGCCAaaAACGg-CGG-GC- -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.