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
12720 5' -63.1 NC_003356.1 + 31712 0.69 0.162727
Target:  5'- gGGCGCaGCGG--GUGCCGGAACCGc- -3'
miRNA:   3'- -UCGCGgCGUCggCACGGCCUUGGCcu -5'
12720 5' -63.1 NC_003356.1 + 37307 0.67 0.228112
Target:  5'- cGGUGaCCGCAGCCGauggucuucuccgggUGCCuguuguggcagacGAACCGGGa -3'
miRNA:   3'- -UCGC-GGCGUCGGC---------------ACGGc------------CUUGGCCU- -5'
12720 5' -63.1 NC_003356.1 + 35331 0.66 0.25867
Target:  5'- cGUGCCGCagacAGCgGUgauugaugcccaGCCGGAACaCGGc -3'
miRNA:   3'- uCGCGGCG----UCGgCA------------CGGCCUUG-GCCu -5'
12720 5' -63.1 NC_003356.1 + 17905 0.66 0.292492
Target:  5'- cGUGUCGCAGC---GCUGGAAcguuCCGGAa -3'
miRNA:   3'- uCGCGGCGUCGgcaCGGCCUU----GGCCU- -5'
12720 5' -63.1 NC_003356.1 + 19220 1.08 0.000159
Target:  5'- gAGCGCCGCAGCCGUGCCGGAACCGGAc -3'
miRNA:   3'- -UCGCGGCGUCGGCACGGCCUUGGCCU- -5'
12720 5' -63.1 NC_003356.1 + 27993 0.71 0.114701
Target:  5'- -cUGCCGUgauGUCGUGCCGGAAaCGGAu -3'
miRNA:   3'- ucGCGGCGu--CGGCACGGCCUUgGCCU- -5'
12720 5' -63.1 NC_003356.1 + 28064 0.66 0.295342
Target:  5'- -aCGCCGCuGaCCGUucaggucgcguauucGCCGGAuCCGGu -3'
miRNA:   3'- ucGCGGCGuC-GGCA---------------CGGCCUuGGCCu -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.