miRNA display CGI


Results 1 - 11 of 11 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
12178 5' -56.8 NC_003309.1 + 34979 0.66 0.682291
Target:  5'- --gUUGGCGaagcugCUGAUGgauauccagacauCGCGCCGGa -3'
miRNA:   3'- ccaAGCCGCg-----GACUACau-----------GCGCGGCC- -5'
12178 5' -56.8 NC_003309.1 + 43942 0.66 0.667336
Target:  5'- gGGUUCGGCuuguGCCaGAUG-AUGUccuGUCGGa -3'
miRNA:   3'- -CCAAGCCG----CGGaCUACaUGCG---CGGCC- -5'
12178 5' -56.8 NC_003309.1 + 15420 0.66 0.656614
Target:  5'- uGUcCGGCGCCgGAacaccuuCGCGCCGa -3'
miRNA:   3'- cCAaGCCGCGGaCUacau---GCGCGGCc -5'
12178 5' -56.8 NC_003309.1 + 15329 0.66 0.645871
Target:  5'- --gUCGGCGa-UGGcUGcUGCGCGUCGGa -3'
miRNA:   3'- ccaAGCCGCggACU-AC-AUGCGCGGCC- -5'
12178 5' -56.8 NC_003309.1 + 13239 0.66 0.642645
Target:  5'- ---cUGGCGCgCUGAccgagaucccgccguUGCGCGCCGGc -3'
miRNA:   3'- ccaaGCCGCG-GACUac-------------AUGCGCGGCC- -5'
12178 5' -56.8 NC_003309.1 + 4204 0.66 0.632964
Target:  5'- cGGUgaUCGGCuucaccaacgaggcaGCgCgGAUGUcguccgccagcucgaACGCGCCGGu -3'
miRNA:   3'- -CCA--AGCCG---------------CG-GaCUACA---------------UGCGCGGCC- -5'
12178 5' -56.8 NC_003309.1 + 10649 0.67 0.570839
Target:  5'- cGUaCGGCauGCCcgcGAUGcGCGCGCCGa -3'
miRNA:   3'- cCAaGCCG--CGGa--CUACaUGCGCGGCc -5'
12178 5' -56.8 NC_003309.1 + 11799 0.68 0.560247
Target:  5'- --gUCGGCgaucGCCUuuucgagcGAcuUGUACGCGUCGGc -3'
miRNA:   3'- ccaAGCCG----CGGA--------CU--ACAUGCGCGGCC- -5'
12178 5' -56.8 NC_003309.1 + 7764 0.69 0.47804
Target:  5'- cGGcgcCGGCGCCUucgccgGUGCGaCGCCGa -3'
miRNA:   3'- -CCaa-GCCGCGGAcua---CAUGC-GCGGCc -5'
12178 5' -56.8 NC_003309.1 + 3958 0.7 0.411281
Target:  5'- aGGcacgUCGGCGCUccGAUGcggcagccaucUGCGCGCCGc -3'
miRNA:   3'- -CCa---AGCCGCGGa-CUAC-----------AUGCGCGGCc -5'
12178 5' -56.8 NC_003309.1 + 45761 1.12 0.000549
Target:  5'- gGGUUCGGCGCCUGAUGUACGCGCCGGu -3'
miRNA:   3'- -CCAAGCCGCGGACUACAUGCGCGGCC- -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.