miRNA display CGI


Results 1 - 11 of 11 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
12285 3' -58.8 NC_003313.1 + 8682 0.66 0.354781
Target:  5'- --cGCGGuCGGCGUGuuugcGGCUaGCagugaGCUGCa -3'
miRNA:   3'- cguCGUC-GCCGUAC-----UCGA-CGg----CGACG- -5'
12285 3' -58.8 NC_003313.1 + 5516 0.66 0.346148
Target:  5'- -uGGCGGCaaGCAUGAGaaGCCGCgaUGUu -3'
miRNA:   3'- cgUCGUCGc-CGUACUCgaCGGCG--ACG- -5'
12285 3' -58.8 NC_003313.1 + 11515 0.67 0.305269
Target:  5'- uCAGCAGCaGGUugccGAGCgUGCuggcguuuCGCUGCg -3'
miRNA:   3'- cGUCGUCG-CCGua--CUCG-ACG--------GCGACG- -5'
12285 3' -58.8 NC_003313.1 + 14413 0.68 0.271024
Target:  5'- -aAGCAGUGGCGuuaugugguuacgauUGAGgaUGCCGCUa- -3'
miRNA:   3'- cgUCGUCGCCGU---------------ACUCg-ACGGCGAcg -5'
12285 3' -58.8 NC_003313.1 + 4472 0.68 0.261233
Target:  5'- uCAGUgauuGCGGCGU-AGUUGCCGUgGCg -3'
miRNA:   3'- cGUCGu---CGCCGUAcUCGACGGCGaCG- -5'
12285 3' -58.8 NC_003313.1 + 28416 0.68 0.254417
Target:  5'- uUAGCAGUGGCuUGcGCUauaucGCCcgcGCUGCg -3'
miRNA:   3'- cGUCGUCGCCGuACuCGA-----CGG---CGACG- -5'
12285 3' -58.8 NC_003313.1 + 32407 0.7 0.177089
Target:  5'- aGCGGCAucaauGCGGCGgcuuacuucuucgcGUUGCUGCUGCa -3'
miRNA:   3'- -CGUCGU-----CGCCGUacu-----------CGACGGCGACG- -5'
12285 3' -58.8 NC_003313.1 + 27398 0.71 0.16419
Target:  5'- aUAGCGGCGGCAgGuuCUGCCGUauUGUu -3'
miRNA:   3'- cGUCGUCGCCGUaCucGACGGCG--ACG- -5'
12285 3' -58.8 NC_003313.1 + 12571 0.73 0.119979
Target:  5'- aGCGGCucggcaaauuGGCGGCuuuauuacUGAGCacggugGCCGCUGUg -3'
miRNA:   3'- -CGUCG----------UCGCCGu-------ACUCGa-----CGGCGACG- -5'
12285 3' -58.8 NC_003313.1 + 17599 0.82 0.021187
Target:  5'- cCAGCAGCGGCAgcucaUGCCGCUGCu -3'
miRNA:   3'- cGUCGUCGCCGUacucgACGGCGACG- -5'
12285 3' -58.8 NC_003313.1 + 17660 1.13 0.000086
Target:  5'- cGCAGCAGCGGCAUGAGCUGCCGCUGCu -3'
miRNA:   3'- -CGUCGUCGCCGUACUCGACGGCGACG- -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.