miRNA display CGI


Results 1 - 12 of 12 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
12579 3' -60 NC_003345.1 + 24001 0.66 0.577278
Target:  5'- aACCGGGUGCuuGCccuccgUGGAGCguccggccccaCGUCGGGa -3'
miRNA:   3'- -UGGUUCAUGcgCG------ACCUCG-----------GCGGCCC- -5'
12579 3' -60 NC_003345.1 + 26083 0.66 0.556814
Target:  5'- gACCGGGUgaugaACGUucccgugauucGCUcGGguuccaucaAGCCGCCGGGu -3'
miRNA:   3'- -UGGUUCA-----UGCG-----------CGA-CC---------UCGGCGGCCC- -5'
12579 3' -60 NC_003345.1 + 66405 0.66 0.546659
Target:  5'- cGCgGAGUACGCGCUGauGCaccaGUaCGGGg -3'
miRNA:   3'- -UGgUUCAUGCGCGACcuCGg---CG-GCCC- -5'
12579 3' -60 NC_003345.1 + 28857 0.67 0.496894
Target:  5'- cUCGAuUACGaaauCGCcGGGGUCGCCGGGu -3'
miRNA:   3'- uGGUUcAUGC----GCGaCCUCGGCGGCCC- -5'
12579 3' -60 NC_003345.1 + 51445 0.69 0.413045
Target:  5'- uACCuc-UACcgGCGCUGGAGCCuCCGGc -3'
miRNA:   3'- -UGGuucAUG--CGCGACCUCGGcGGCCc -5'
12579 3' -60 NC_003345.1 + 50023 0.69 0.387089
Target:  5'- cGCCAccuccAC-CGCcGGAGCCGCCGGa -3'
miRNA:   3'- -UGGUuca--UGcGCGaCCUCGGCGGCCc -5'
12579 3' -60 NC_003345.1 + 46111 0.69 0.387089
Target:  5'- gACCGAGUACGaCGagUGGuucGCCGCucgcaCGGGg -3'
miRNA:   3'- -UGGUUCAUGC-GCg-ACCu--CGGCG-----GCCC- -5'
12579 3' -60 NC_003345.1 + 47520 0.69 0.378679
Target:  5'- cGCUGAGaACGuCGCcGGAGCCGaggaagaCGGGg -3'
miRNA:   3'- -UGGUUCaUGC-GCGaCCUCGGCg------GCCC- -5'
12579 3' -60 NC_003345.1 + 38722 0.7 0.36223
Target:  5'- aACCGAGUcggccCGCGCcguggGGAGCCGaguaguuguauUCGGGg -3'
miRNA:   3'- -UGGUUCAu----GCGCGa----CCUCGGC-----------GGCCC- -5'
12579 3' -60 NC_003345.1 + 22712 0.73 0.220106
Target:  5'- aACCGAGU-CGUucgaGCUGaAGCCGCCGGa -3'
miRNA:   3'- -UGGUUCAuGCG----CGACcUCGGCGGCCc -5'
12579 3' -60 NC_003345.1 + 21808 0.74 0.1893
Target:  5'- cACCGAGcgaGC-CGCUGGAGCCGCUGa- -3'
miRNA:   3'- -UGGUUCa--UGcGCGACCUCGGCGGCcc -5'
12579 3' -60 NC_003345.1 + 72434 1.09 0.000625
Target:  5'- aACCAAGUACGCGCUGGAGCCGCCGGGc -3'
miRNA:   3'- -UGGUUCAUGCGCGACCUCGGCGGCCC- -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.