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
7249 3' -58.3 NC_001900.1 + 33710 0.66 0.47626
Target:  5'- uGGUagAGCGCCUggaacGCCAGgagcUGGUGCa -3'
miRNA:   3'- cCCA--UCGCGGAaua--CGGUC----GCCGCGa -5'
7249 3' -58.3 NC_001900.1 + 1232 0.67 0.456256
Target:  5'- cGGUGGUGUacucgGUGgCGGCGGCaGCg -3'
miRNA:   3'- cCCAUCGCGgaa--UACgGUCGCCG-CGa -5'
7249 3' -58.3 NC_001900.1 + 31421 0.67 0.456256
Target:  5'- cGGUAGCGCCUcaucaCgCGGCaGCGCg -3'
miRNA:   3'- cCCAUCGCGGAauac-G-GUCGcCGCGa -5'
7249 3' -58.3 NC_001900.1 + 18170 0.67 0.436712
Target:  5'- uGGGUcGGCuCCUg--GuCCAGCGGUGUg -3'
miRNA:   3'- -CCCA-UCGcGGAauaC-GGUCGCCGCGa -5'
7249 3' -58.3 NC_001900.1 + 35663 0.67 0.436712
Target:  5'- ---cAGCGCCaUGUGCCucuGGCGGgGUa -3'
miRNA:   3'- cccaUCGCGGaAUACGG---UCGCCgCGa -5'
7249 3' -58.3 NC_001900.1 + 38911 0.67 0.417659
Target:  5'- cGG-AG-GCCggAUGUCAGCGGCGgUa -3'
miRNA:   3'- cCCaUCgCGGaaUACGGUCGCCGCgA- -5'
7249 3' -58.3 NC_001900.1 + 27467 0.68 0.393664
Target:  5'- uGGGgccgAGCcgcacgGCCUUGaGCCggccgucggcgauguAGCGGCGCa -3'
miRNA:   3'- -CCCa---UCG------CGGAAUaCGG---------------UCGCCGCGa -5'
7249 3' -58.3 NC_001900.1 + 29281 0.68 0.363666
Target:  5'- ---cGGCGUCUUGaGCCGGCGGUugGCg -3'
miRNA:   3'- cccaUCGCGGAAUaCGGUCGCCG--CGa -5'
7249 3' -58.3 NC_001900.1 + 30013 0.69 0.330453
Target:  5'- cGGGcAGCGUCUgcgccgggAUGCCAGUGaucgacauGCGCg -3'
miRNA:   3'- -CCCaUCGCGGAa-------UACGGUCGC--------CGCGa -5'
7249 3' -58.3 NC_001900.1 + 24816 0.69 0.314704
Target:  5'- cGGUGGCacGCUcaucgcUGCCGGUGGUGCUg -3'
miRNA:   3'- cCCAUCG--CGGaau---ACGGUCGCCGCGA- -5'
7249 3' -58.3 NC_001900.1 + 9751 0.72 0.220277
Target:  5'- aGGGUGGcCGCUgcuacaucUGCCAGCGG-GCg -3'
miRNA:   3'- -CCCAUC-GCGGaau-----ACGGUCGCCgCGa -5'
7249 3' -58.3 NC_001900.1 + 24959 0.75 0.121044
Target:  5'- cGGGUAcGCaCCUgGUGgCGGCGGCGCa -3'
miRNA:   3'- -CCCAU-CGcGGAaUACgGUCGCCGCGa -5'
7249 3' -58.3 NC_001900.1 + 766 1.1 0.00031
Target:  5'- cGGGUAGCGCCUUAUGCCAGCGGCGCUa -3'
miRNA:   3'- -CCCAUCGCGGAAUACGGUCGCCGCGA- -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.