miRNA display CGI


Results 1 - 20 of 21 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
13332 3' -63.4 NC_003409.1 + 26574 0.66 0.540252
Target:  5'- aGAGGGUGUagagGGACCCAU--CUGCUGGa -3'
miRNA:   3'- -CUCUCGCGa---CCUGGGUGccGGCGGCC- -5'
13332 3' -63.4 NC_003409.1 + 112775 0.66 0.540252
Target:  5'- -cGAGCGCaacGcGCCCGCuuggcaagGGCCGCgCGGg -3'
miRNA:   3'- cuCUCGCGa--CcUGGGUG--------CCGGCG-GCC- -5'
13332 3' -63.4 NC_003409.1 + 133184 0.66 0.540252
Target:  5'- --aGGCGCUGG-CgCCGCGGaCCgGCCuGGa -3'
miRNA:   3'- cucUCGCGACCuG-GGUGCC-GG-CGG-CC- -5'
13332 3' -63.4 NC_003409.1 + 90325 0.67 0.521404
Target:  5'- uGAuGGUGCUGGACU----GCCGCCGGc -3'
miRNA:   3'- -CUcUCGCGACCUGGgugcCGGCGGCC- -5'
13332 3' -63.4 NC_003409.1 + 62841 0.67 0.512075
Target:  5'- uAGAGaCGUU-GACugCCACGGCCGCCu- -3'
miRNA:   3'- cUCUC-GCGAcCUG--GGUGCCGGCGGcc -5'
13332 3' -63.4 NC_003409.1 + 18926 0.67 0.512075
Target:  5'- aGGAGCGCcauccgcgGGGCCaucuUGGUCGCCuGGa -3'
miRNA:   3'- cUCUCGCGa-------CCUGGgu--GCCGGCGG-CC- -5'
13332 3' -63.4 NC_003409.1 + 24698 0.68 0.423221
Target:  5'- uGGGGUGCUgccgGGGCuCCugGgguGCUGCCGGg -3'
miRNA:   3'- cUCUCGCGA----CCUG-GGugC---CGGCGGCC- -5'
13332 3' -63.4 NC_003409.1 + 24658 0.68 0.423221
Target:  5'- uGGGGUGCUgccgGGGCuCCugGgguGCUGCCGGg -3'
miRNA:   3'- cUCUCGCGA----CCUG-GGugC---CGGCGGCC- -5'
13332 3' -63.4 NC_003409.1 + 24618 0.68 0.423221
Target:  5'- uGGGGUGCUgccgGGGCuCCugGgguGCUGCCGGg -3'
miRNA:   3'- cUCUCGCGA----CCUG-GGugC---CGGCGGCC- -5'
13332 3' -63.4 NC_003409.1 + 24578 0.68 0.423221
Target:  5'- uGGGGUGCUgccgGGGCuCCugGgguGCUGCCGGg -3'
miRNA:   3'- cUCUCGCGA----CCUG-GGugC---CGGCGGCC- -5'
13332 3' -63.4 NC_003409.1 + 24538 0.68 0.423221
Target:  5'- uGGGGUGCUgccgGGGCuCCugGgguGCUGCCGGg -3'
miRNA:   3'- cUCUCGCGA----CCUG-GGugC---CGGCGGCC- -5'
13332 3' -63.4 NC_003409.1 + 24498 0.68 0.423221
Target:  5'- uGGGGUGCUgccgGGGCuCCugGgguGCUGCCGGg -3'
miRNA:   3'- cUCUCGCGA----CCUG-GGugC---CGGCGGCC- -5'
13332 3' -63.4 NC_003409.1 + 24458 0.68 0.423221
Target:  5'- uGGGGUGCUgccgGGGCuCCugGgguGCUGCCGGg -3'
miRNA:   3'- cUCUCGCGA----CCUG-GGugC---CGGCGGCC- -5'
13332 3' -63.4 NC_003409.1 + 16632 0.7 0.359183
Target:  5'- ----aCGCUGGcCCCgcGCGGCCGCCaGGu -3'
miRNA:   3'- cucucGCGACCuGGG--UGCCGGCGG-CC- -5'
13332 3' -63.4 NC_003409.1 + 133132 0.7 0.354661
Target:  5'- cGAGGuGCGCacccaccugccugcGGAuCCCGCGGCCGguCCGGa -3'
miRNA:   3'- -CUCU-CGCGa-------------CCU-GGGUGCCGGC--GGCC- -5'
13332 3' -63.4 NC_003409.1 + 82431 0.7 0.329802
Target:  5'- aGGGGGgGUgGGAuuCCCugGGCCGaCUGGg -3'
miRNA:   3'- -CUCUCgCGaCCU--GGGugCCGGC-GGCC- -5'
13332 3' -63.4 NC_003409.1 + 24738 0.75 0.161169
Target:  5'- aGGGGGCGCgccgGGGCuCCugGgguGCUGCCGGg -3'
miRNA:   3'- -CUCUCGCGa---CCUG-GGugC---CGGCGGCC- -5'
13332 3' -63.4 NC_003409.1 + 105229 0.77 0.122995
Target:  5'- aGAGcAGCGCUGuGGCgCCugGgGUCGCCGGg -3'
miRNA:   3'- -CUC-UCGCGAC-CUG-GGugC-CGGCGGCC- -5'
13332 3' -63.4 NC_003409.1 + 116053 0.77 0.119676
Target:  5'- aGGGAGCaggaguauaaaaaGCUcaGGGCauCCGCGGCCGCCGGa -3'
miRNA:   3'- -CUCUCG-------------CGA--CCUG--GGUGCCGGCGGCC- -5'
13332 3' -63.4 NC_003409.1 + 109311 0.78 0.102999
Target:  5'- -uGGGCGCgccgucuUGGGCCCACGGgaGCCGGa -3'
miRNA:   3'- cuCUCGCG-------ACCUGGGUGCCggCGGCC- -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.