miRNA display CGI


Results 1 - 16 of 16 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
13335 3' -61.1 NC_003409.1 + 107350 0.66 0.683577
Target:  5'- cUCCAacgcCGAUGGAAuacaGcGCCaGCCCCCu -3'
miRNA:   3'- uAGGU----GCUGCCUUug--C-CGG-CGGGGGc -5'
13335 3' -61.1 NC_003409.1 + 96220 0.66 0.683577
Target:  5'- uGUgCACGGUGGAGGugaGGuuGUCCCCGu -3'
miRNA:   3'- -UAgGUGCUGCCUUUg--CCggCGGGGGC- -5'
13335 3' -61.1 NC_003409.1 + 14979 0.67 0.614329
Target:  5'- cGUuuGCGGCGGAG--GGCCGCguaCCCa -3'
miRNA:   3'- -UAggUGCUGCCUUugCCGGCGg--GGGc -5'
13335 3' -61.1 NC_003409.1 + 72155 0.67 0.60443
Target:  5'- -cCCAuuuUGugGGAGcgucCGGCCGUCUCCGc -3'
miRNA:   3'- uaGGU---GCugCCUUu---GCCGGCGGGGGC- -5'
13335 3' -61.1 NC_003409.1 + 45073 0.67 0.60443
Target:  5'- -aCCAUGACGaGAgacacguccugGACGuGgCGCCCCUGg -3'
miRNA:   3'- uaGGUGCUGC-CU-----------UUGC-CgGCGGGGGC- -5'
13335 3' -61.1 NC_003409.1 + 10422 0.67 0.588633
Target:  5'- gGUCCACGuuaaugcacucggucACGGAAAUGGC-GUCUCCu -3'
miRNA:   3'- -UAGGUGC---------------UGCCUUUGCCGgCGGGGGc -5'
13335 3' -61.1 NC_003409.1 + 3188 0.67 0.584695
Target:  5'- -aCUugGccucauAUGGAAAC-GCCGCCCCCu -3'
miRNA:   3'- uaGGugC------UGCCUUUGcCGGCGGGGGc -5'
13335 3' -61.1 NC_003409.1 + 109329 0.67 0.584695
Target:  5'- -cCCACGGgagcCGGAGcAC-GCCGCCCCgGa -3'
miRNA:   3'- uaGGUGCU----GCCUU-UGcCGGCGGGGgC- -5'
13335 3' -61.1 NC_003409.1 + 32292 0.68 0.574872
Target:  5'- cAUCCAggcUGGCGGAcACcucccacguGGCCagaGCCCCCGu -3'
miRNA:   3'- -UAGGU---GCUGCCUuUG---------CCGG---CGGGGGC- -5'
13335 3' -61.1 NC_003409.1 + 76783 0.68 0.565088
Target:  5'- -aCCAggaGGCGGuuuAGCGG-UGCCCCCGu -3'
miRNA:   3'- uaGGUg--CUGCCu--UUGCCgGCGGGGGC- -5'
13335 3' -61.1 NC_003409.1 + 32125 0.68 0.536022
Target:  5'- -gCCACGugGGAggUGuCCGCCagCCUGg -3'
miRNA:   3'- uaGGUGCugCCUuuGCcGGCGG--GGGC- -5'
13335 3' -61.1 NC_003409.1 + 71971 0.69 0.507495
Target:  5'- uAUCCcuaacuuCGgaGCGGAGACGGCCggacGCUCCCa -3'
miRNA:   3'- -UAGGu------GC--UGCCUUUGCCGG----CGGGGGc -5'
13335 3' -61.1 NC_003409.1 + 33814 0.69 0.479633
Target:  5'- aGUCCAUGGCGG--GC-GCUGUCCCUGg -3'
miRNA:   3'- -UAGGUGCUGCCuuUGcCGGCGGGGGC- -5'
13335 3' -61.1 NC_003409.1 + 109847 0.77 0.176469
Target:  5'- -gCCGCGGCgGGAGGCGGUgGCgCCCGg -3'
miRNA:   3'- uaGGUGCUG-CCUUUGCCGgCGgGGGC- -5'
13335 3' -61.1 NC_003409.1 + 111856 0.78 0.152237
Target:  5'- -gCCACcGCGGggGCGGCCGUUUCCGu -3'
miRNA:   3'- uaGGUGcUGCCuuUGCCGGCGGGGGC- -5'
13335 3' -61.1 NC_003409.1 + 112026 1.05 0.001686
Target:  5'- cAUCCACGACGGAAACGGCCGCCCCCGc -3'
miRNA:   3'- -UAGGUGCUGCCUUUGCCGGCGGGGGC- -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.