miRNA display CGI


Results 1 - 7 of 7 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
12733 3' -55.6 NC_003356.1 + 37903 0.67 0.571689
Target:  5'- cGCCcuuCCGGC-ACAcCAUCCCGGAa -3'
miRNA:   3'- -CGGuacGGCUGcUGUaGUAGGGCCUg -5'
12733 3' -55.6 NC_003356.1 + 35113 0.68 0.527109
Target:  5'- uGCCggGCCaGCGggugguaauggcaACAUUaaaAUCCCGGGCa -3'
miRNA:   3'- -CGGuaCGGcUGC-------------UGUAG---UAGGGCCUG- -5'
12733 3' -55.6 NC_003356.1 + 34840 0.66 0.615999
Target:  5'- cGUCAUGguaCGACGAUG-CGUCCCGuGAa -3'
miRNA:   3'- -CGGUACg--GCUGCUGUaGUAGGGC-CUg -5'
12733 3' -55.6 NC_003356.1 + 31695 0.66 0.649414
Target:  5'- aGCgGUGCCGAC-ACcUUAUCCaCGG-Ca -3'
miRNA:   3'- -CGgUACGGCUGcUGuAGUAGG-GCCuG- -5'
12733 3' -55.6 NC_003356.1 + 30981 1.12 0.000411
Target:  5'- aGCCAUGCCGACGACAUCAUCCCGGACa -3'
miRNA:   3'- -CGGUACGGCUGCUGUAGUAGGGCCUG- -5'
12733 3' -55.6 NC_003356.1 + 29545 0.66 0.660533
Target:  5'- ---cUGCUGACGGCAUCAgcaCCaGGCu -3'
miRNA:   3'- cgguACGGCUGCUGUAGUag-GGcCUG- -5'
12733 3' -55.6 NC_003356.1 + 2354 0.66 0.649414
Target:  5'- aGUUAcUGUCGGCGGCaAUCugaCCGGACu -3'
miRNA:   3'- -CGGU-ACGGCUGCUG-UAGuagGGCCUG- -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.