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
11407 3' -54.8 NC_003085.1 + 38208 0.66 0.710625
Target:  5'- -cUCGGGCgGCgguggCUCGUGCACuCUCGa- -3'
miRNA:   3'- aaGGCCUG-CGa----GAGUAUGUG-GAGCag -5'
11407 3' -54.8 NC_003085.1 + 30671 0.66 0.699635
Target:  5'- ---aGGGCGCUCU---GCGCCUCG-Ca -3'
miRNA:   3'- aaggCCUGCGAGAguaUGUGGAGCaG- -5'
11407 3' -54.8 NC_003085.1 + 27711 0.66 0.688576
Target:  5'- gUCCGccCGCUgUC--GCGCCUCGUUg -3'
miRNA:   3'- aAGGCcuGCGAgAGuaUGUGGAGCAG- -5'
11407 3' -54.8 NC_003085.1 + 27456 0.66 0.6663
Target:  5'- --aUGGGCGCgcagUUUCGUGCgggaggccACCUCGUCg -3'
miRNA:   3'- aagGCCUGCG----AGAGUAUG--------UGGAGCAG- -5'
11407 3' -54.8 NC_003085.1 + 9731 0.66 0.6663
Target:  5'- cUUCCGG-CGCUggucCUCAUcCACCUUG-Cg -3'
miRNA:   3'- -AAGGCCuGCGA----GAGUAuGUGGAGCaG- -5'
11407 3' -54.8 NC_003085.1 + 28194 0.67 0.621438
Target:  5'- gUCUGGGCGCgg-CAc-CACCUUGUCc -3'
miRNA:   3'- aAGGCCUGCGagaGUauGUGGAGCAG- -5'
11407 3' -54.8 NC_003085.1 + 17544 0.68 0.543655
Target:  5'- -aCCGGGCuGCUgcucccgugcCUCGUcCGCCUCGUUc -3'
miRNA:   3'- aaGGCCUG-CGA----------GAGUAuGUGGAGCAG- -5'
11407 3' -54.8 NC_003085.1 + 616 0.69 0.521954
Target:  5'- gUCCuGGGCGCgCUCGagGCuggcgcggACCUCGUCg -3'
miRNA:   3'- aAGG-CCUGCGaGAGUa-UG--------UGGAGCAG- -5'
11407 3' -54.8 NC_003085.1 + 24121 0.69 0.500597
Target:  5'- gUCCGGaaGCGCgcgC-CAUcCACCUUGUCg -3'
miRNA:   3'- aAGGCC--UGCGa--GaGUAuGUGGAGCAG- -5'
11407 3' -54.8 NC_003085.1 + 4658 0.71 0.409956
Target:  5'- -cCCGGugGCagaggcgagccUUUCAcggcgccgaguUGCGCCUCGUCg -3'
miRNA:   3'- aaGGCCugCG-----------AGAGU-----------AUGUGGAGCAG- -5'
11407 3' -54.8 NC_003085.1 + 39493 0.72 0.346929
Target:  5'- -gUCGaGGCGCUCgagaagccgGUGCGCCUCGUCg -3'
miRNA:   3'- aaGGC-CUGCGAGag-------UAUGUGGAGCAG- -5'
11407 3' -54.8 NC_003085.1 + 48812 0.74 0.262549
Target:  5'- gUCCGGGCGgUgCUCGaGCGCCUCGa- -3'
miRNA:   3'- aAGGCCUGCgA-GAGUaUGUGGAGCag -5'
11407 3' -54.8 NC_003085.1 + 48066 1.06 0.001414
Target:  5'- cUUCCGGACGCUCUCAUACACCUCGUCc -3'
miRNA:   3'- -AAGGCCUGCGAGAGUAUGUGGAGCAG- -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.