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
12988 3' -52.3 NC_003387.1 + 3993 0.66 0.85321
Target:  5'- aGGAUUGAGGcggccGUGGcGGCGaucaGCCAGGc -3'
miRNA:   3'- -CCUAGCUCUu----CACU-UCGCg---UGGUCCu -5'
12988 3' -52.3 NC_003387.1 + 22371 0.66 0.835523
Target:  5'- cGGUCGAcucGUGAAuguggccgccGgGCACCAGGAa -3'
miRNA:   3'- cCUAGCUcuuCACUU----------CgCGUGGUCCU- -5'
12988 3' -52.3 NC_003387.1 + 42168 0.67 0.807346
Target:  5'- cGAUCGAGGAGcUGAccgAGCGCcucaACgAGGc -3'
miRNA:   3'- cCUAGCUCUUC-ACU---UCGCG----UGgUCCu -5'
12988 3' -52.3 NC_003387.1 + 39217 0.67 0.797556
Target:  5'- cGGUCGGGcAGUgGGAGCggguaccgGCGCCGGGc -3'
miRNA:   3'- cCUAGCUCuUCA-CUUCG--------CGUGGUCCu -5'
12988 3' -52.3 NC_003387.1 + 731 0.69 0.724637
Target:  5'- aGGUCGGGc----AGGUGCGCCAGGAu -3'
miRNA:   3'- cCUAGCUCuucacUUCGCGUGGUCCU- -5'
12988 3' -52.3 NC_003387.1 + 27131 0.69 0.679471
Target:  5'- cGGGUCGAGGccgugcccgccggGGUc-GGCGCcGCCGGGGa -3'
miRNA:   3'- -CCUAGCUCU-------------UCAcuUCGCG-UGGUCCU- -5'
12988 3' -52.3 NC_003387.1 + 14336 0.7 0.635761
Target:  5'- aGGUCGAGGucGUGca--GCACCAGGAu -3'
miRNA:   3'- cCUAGCUCUu-CACuucgCGUGGUCCU- -5'
12988 3' -52.3 NC_003387.1 + 31011 0.71 0.579719
Target:  5'- aGGAUCGGGcc--GAGcGUGCGCCGGGGc -3'
miRNA:   3'- -CCUAGCUCuucaCUU-CGCGUGGUCCU- -5'
12988 3' -52.3 NC_003387.1 + 43639 0.73 0.471954
Target:  5'- cGGGUCGAGGGacu-GGCGCACCAGc- -3'
miRNA:   3'- -CCUAGCUCUUcacuUCGCGUGGUCcu -5'
12988 3' -52.3 NC_003387.1 + 16026 0.73 0.468868
Target:  5'- cGGGUCGAGAuucagcuugcccgcGGUGAA-CGCgGCCAGGu -3'
miRNA:   3'- -CCUAGCUCU--------------UCACUUcGCG-UGGUCCu -5'
12988 3' -52.3 NC_003387.1 + 50248 0.77 0.278194
Target:  5'- cGGAUCGAgGAGGUGGccgacguGCGCACCgAGGu -3'
miRNA:   3'- -CCUAGCU-CUUCACUu------CGCGUGG-UCCu -5'
12988 3' -52.3 NC_003387.1 + 46847 1.12 0.00129
Target:  5'- cGGAUCGAGAAGUGAAGCGCACCAGGAc -3'
miRNA:   3'- -CCUAGCUCUUCACUUCGCGUGGUCCU- -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.