miRNA display CGI


Results 1 - 20 of 20 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
7255 3' -56.5 NC_001900.1 + 519 1.07 0.000936
Target:  5'- cAACCUACGUUCCGGCCAACCUCGCGGc -3'
miRNA:   3'- -UUGGAUGCAAGGCCGGUUGGAGCGCC- -5'
7255 3' -56.5 NC_001900.1 + 16616 0.75 0.192907
Target:  5'- cGGCCgACGUUCCGgucaacGCCGACCUgaaCGCGGc -3'
miRNA:   3'- -UUGGaUGCAAGGC------CGGUUGGA---GCGCC- -5'
7255 3' -56.5 NC_001900.1 + 41077 0.74 0.21455
Target:  5'- aGACgUUGCGggCCaGGCCGgugACCUCGCGGc -3'
miRNA:   3'- -UUG-GAUGCaaGG-CCGGU---UGGAGCGCC- -5'
7255 3' -56.5 NC_001900.1 + 47842 0.7 0.390052
Target:  5'- gGACUcGCGUgCCGugacGCgAACCUCGCGGu -3'
miRNA:   3'- -UUGGaUGCAaGGC----CGgUUGGAGCGCC- -5'
7255 3' -56.5 NC_001900.1 + 25634 0.7 0.408325
Target:  5'- cAUCUuCG-UCCGGUCAGCCaugugcUCGCGGa -3'
miRNA:   3'- uUGGAuGCaAGGCCGGUUGG------AGCGCC- -5'
7255 3' -56.5 NC_001900.1 + 7218 0.69 0.456256
Target:  5'- uGGCCUucaucACGaUCCGGCCGauggcgACCUCGUa- -3'
miRNA:   3'- -UUGGA-----UGCaAGGCCGGU------UGGAGCGcc -5'
7255 3' -56.5 NC_001900.1 + 41216 0.68 0.47626
Target:  5'- cACCUGCugGUgcagCgGGUUGGCCUUGCGGg -3'
miRNA:   3'- uUGGAUG--CAa---GgCCGGUUGGAGCGCC- -5'
7255 3' -56.5 NC_001900.1 + 47360 0.68 0.486424
Target:  5'- cGACC-GCGUUCUGuGCCAagguguGCUaCGCGGg -3'
miRNA:   3'- -UUGGaUGCAAGGC-CGGU------UGGaGCGCC- -5'
7255 3' -56.5 NC_001900.1 + 16518 0.68 0.507053
Target:  5'- cAGCCUuc-UUCgCGGCCAcuACCaUCGCGGc -3'
miRNA:   3'- -UUGGAugcAAG-GCCGGU--UGG-AGCGCC- -5'
7255 3' -56.5 NC_001900.1 + 18810 0.68 0.517506
Target:  5'- uGAUgaACGcaCCGGUCGACUUCGCGa -3'
miRNA:   3'- -UUGgaUGCaaGGCCGGUUGGAGCGCc -5'
7255 3' -56.5 NC_001900.1 + 46732 0.67 0.528045
Target:  5'- cGCCUacaugcaagagACGUUCgggguCGGCCGACgagacaUCGCGGa -3'
miRNA:   3'- uUGGA-----------UGCAAG-----GCCGGUUGg-----AGCGCC- -5'
7255 3' -56.5 NC_001900.1 + 25237 0.67 0.549351
Target:  5'- cGCCU-CGUacCCGGCCcgAGCCUCuGCGa -3'
miRNA:   3'- uUGGAuGCAa-GGCCGG--UUGGAG-CGCc -5'
7255 3' -56.5 NC_001900.1 + 43312 0.67 0.550424
Target:  5'- gGACCgagACuGggCUGGCCcggaccacgaccuccACCUCGCGGa -3'
miRNA:   3'- -UUGGa--UG-CaaGGCCGGu--------------UGGAGCGCC- -5'
7255 3' -56.5 NC_001900.1 + 9698 0.67 0.570917
Target:  5'- uGCCUugG--CCGGCCGACCgaucCGaGGa -3'
miRNA:   3'- uUGGAugCaaGGCCGGUUGGa---GCgCC- -5'
7255 3' -56.5 NC_001900.1 + 39216 0.66 0.592681
Target:  5'- uACCUGCGUaagcccCCGGCCGuCCaggucaUCGgGGa -3'
miRNA:   3'- uUGGAUGCAa-----GGCCGGUuGG------AGCgCC- -5'
7255 3' -56.5 NC_001900.1 + 47616 0.66 0.625553
Target:  5'- gAACCUucggaGCGUUCuuacgCGGU--GCCUUGCGGa -3'
miRNA:   3'- -UUGGA-----UGCAAG-----GCCGguUGGAGCGCC- -5'
7255 3' -56.5 NC_001900.1 + 16935 0.66 0.636534
Target:  5'- uGGCCUACuggCUGGCCuGCCgUCGCu- -3'
miRNA:   3'- -UUGGAUGcaaGGCCGGuUGG-AGCGcc -5'
7255 3' -56.5 NC_001900.1 + 45677 0.66 0.644219
Target:  5'- cGCUcACGg-CCGGCCGGCCUcaccacaccuuucgCGUGGg -3'
miRNA:   3'- uUGGaUGCaaGGCCGGUUGGA--------------GCGCC- -5'
7255 3' -56.5 NC_001900.1 + 1278 0.66 0.646415
Target:  5'- uGCCUGCGUUgCCGGugccuaaaccgccCCGGCCgcuuccgGCGGc -3'
miRNA:   3'- uUGGAUGCAA-GGCC-------------GGUUGGag-----CGCC- -5'
7255 3' -56.5 NC_001900.1 + 31650 0.66 0.647512
Target:  5'- uGACgaACGcUUCaccgaaGGUCcGCCUCGCGGu -3'
miRNA:   3'- -UUGgaUGC-AAGg-----CCGGuUGGAGCGCC- -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.