miRNA display CGI


Results 1 - 13 of 13 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
23025 5' -53.4 NC_005178.1 + 14573 0.66 0.768468
Target:  5'- gGGUUuuUCaGCaGGCGCGACaGGACcGAGu -3'
miRNA:   3'- -CCAAuuGG-CG-CUGCGCUG-CCUGuCUC- -5'
23025 5' -53.4 NC_005178.1 + 24119 0.66 0.767428
Target:  5'- aGGUcgUGACCaagGCGGCgggcuccGUGACGGGC-GAGg -3'
miRNA:   3'- -CCA--AUUGG---CGCUG-------CGCUGCCUGuCUC- -5'
23025 5' -53.4 NC_005178.1 + 10761 0.66 0.747412
Target:  5'- cGG-UGAgUGCGACGCGggauuaGCGGAaGGGGu -3'
miRNA:   3'- -CCaAUUgGCGCUGCGC------UGCCUgUCUC- -5'
23025 5' -53.4 NC_005178.1 + 7935 0.66 0.725865
Target:  5'- cGGc--GCCGCGcACaGUcACGGACGGGGg -3'
miRNA:   3'- -CCaauUGGCGC-UG-CGcUGCCUGUCUC- -5'
23025 5' -53.4 NC_005178.1 + 28877 0.66 0.724776
Target:  5'- ----cACCGCGAacccagaccugguCGCGGCuGGGCAGGc -3'
miRNA:   3'- ccaauUGGCGCU-------------GCGCUG-CCUGUCUc -5'
23025 5' -53.4 NC_005178.1 + 21301 0.67 0.692839
Target:  5'- cGGUUcgacGCCGaUGAUGCGGCcGGcCGGGGa -3'
miRNA:   3'- -CCAAu---UGGC-GCUGCGCUG-CCuGUCUC- -5'
23025 5' -53.4 NC_005178.1 + 14881 0.67 0.670493
Target:  5'- cGGUUGACCcagaacGUGAUGCaGGCGGcgaAGGGg -3'
miRNA:   3'- -CCAAUUGG------CGCUGCG-CUGCCug-UCUC- -5'
23025 5' -53.4 NC_005178.1 + 31361 0.67 0.658132
Target:  5'- cGGUgGACCGCGA-GCGGCagcuacuGGACAuGAc -3'
miRNA:   3'- -CCAaUUGGCGCUgCGCUG-------CCUGU-CUc -5'
23025 5' -53.4 NC_005178.1 + 28611 0.69 0.558223
Target:  5'- -----cCCgGUGGCGCGGCGGACGGc- -3'
miRNA:   3'- ccaauuGG-CGCUGCGCUGCCUGUCuc -5'
23025 5' -53.4 NC_005178.1 + 17663 0.7 0.514529
Target:  5'- aGG-UGACCGUcgaGACGgGcguagacaaGCGGACAGGGg -3'
miRNA:   3'- -CCaAUUGGCG---CUGCgC---------UGCCUGUCUC- -5'
23025 5' -53.4 NC_005178.1 + 11021 0.74 0.323842
Target:  5'- cGGUgu-CgGUGACGCGGgGGGCAGGa -3'
miRNA:   3'- -CCAauuGgCGCUGCGCUgCCUGUCUc -5'
23025 5' -53.4 NC_005178.1 + 9113 0.74 0.315803
Target:  5'- cGG-UGACCGCGAgCGCGGCGcGGCAu-- -3'
miRNA:   3'- -CCaAUUGGCGCU-GCGCUGC-CUGUcuc -5'
23025 5' -53.4 NC_005178.1 + 5301 1.11 0.00093
Target:  5'- aGGUUAACCGCGACGCGACGGACAGAGc -3'
miRNA:   3'- -CCAAUUGGCGCUGCGCUGCCUGUCUC- -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.