miRNA display CGI


Results 1 - 8 of 8 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
1268 5' -54.1 NC_001317.1 + 18227 1.11 0.000403
Target:  5'- cGCGCCAAGUGCGGUCACAAUGGCACUa -3'
miRNA:   3'- -CGCGGUUCACGCCAGUGUUACCGUGA- -5'
1268 5' -54.1 NC_001317.1 + 1588 0.73 0.235802
Target:  5'- cCGCCA-GUGCGG-CGCAAUGGgAUUc -3'
miRNA:   3'- cGCGGUuCACGCCaGUGUUACCgUGA- -5'
1268 5' -54.1 NC_001317.1 + 581 0.7 0.368495
Target:  5'- uGCGCCGGGU-CGGUCACAuacAUGauguaacccgcauGCGCg -3'
miRNA:   3'- -CGCGGUUCAcGCCAGUGU---UAC-------------CGUGa -5'
1268 5' -54.1 NC_001317.1 + 20658 0.7 0.378718
Target:  5'- cGCGCau-GUGCGG-C-UGAUGGCACUu -3'
miRNA:   3'- -CGCGguuCACGCCaGuGUUACCGUGA- -5'
1268 5' -54.1 NC_001317.1 + 5104 0.67 0.501637
Target:  5'- uCGCCcgAGGUGuCGGUCgugcugGCGAUGGUGCc -3'
miRNA:   3'- cGCGG--UUCAC-GCCAG------UGUUACCGUGa -5'
1268 5' -54.1 NC_001317.1 + 15036 0.66 0.569327
Target:  5'- cCGCgCAGGUGCuGGccgaCACAAUGGCu-- -3'
miRNA:   3'- cGCG-GUUCACG-CCa---GUGUUACCGuga -5'
1268 5' -54.1 NC_001317.1 + 23455 0.66 0.569327
Target:  5'- cGUGCCGGGcuuuUGCGcagcGUCACAacAUGGCGa- -3'
miRNA:   3'- -CGCGGUUC----ACGC----CAGUGU--UACCGUga -5'
1268 5' -54.1 NC_001317.1 + 2492 0.66 0.592444
Target:  5'- aGCGCCGGGUGC-GUCGugcucgcgccgcCGGUGGUuuCUg -3'
miRNA:   3'- -CGCGGUUCACGcCAGU------------GUUACCGu-GA- -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.