miRNA display CGI


Results 1 - 15 of 15 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
11909 3' -52.8 NC_003278.1 + 6269 0.66 0.738038
Target:  5'- uGCCggugaagaucgCACC--GGCggCCACGCCGAg -3'
miRNA:   3'- gCGGaa---------GUGGaaCUGaaGGUGUGGCU- -5'
11909 3' -52.8 NC_003278.1 + 7241 0.66 0.718046
Target:  5'- gGCCUggCGCCUUGAgaagaucgcggcCggCUAUGCCGAa -3'
miRNA:   3'- gCGGAa-GUGGAACU------------GaaGGUGUGGCU- -5'
11909 3' -52.8 NC_003278.1 + 16491 0.67 0.69548
Target:  5'- uGCCUUCGCCc--GCUUCUGCagcaaaaaACCGGc -3'
miRNA:   3'- gCGGAAGUGGaacUGAAGGUG--------UGGCU- -5'
11909 3' -52.8 NC_003278.1 + 2891 0.67 0.68409
Target:  5'- uGCCUUgGCCgggcGAC-UUgACGCCGAu -3'
miRNA:   3'- gCGGAAgUGGaa--CUGaAGgUGUGGCU- -5'
11909 3' -52.8 NC_003278.1 + 13842 0.67 0.649642
Target:  5'- gGCCUgCGCCggGGCgcUgGCGCCGAg -3'
miRNA:   3'- gCGGAaGUGGaaCUGaaGgUGUGGCU- -5'
11909 3' -52.8 NC_003278.1 + 18043 0.67 0.638108
Target:  5'- gGCCagaUCACCaUGGCUUCgCGCGCggCGAa -3'
miRNA:   3'- gCGGa--AGUGGaACUGAAG-GUGUG--GCU- -5'
11909 3' -52.8 NC_003278.1 + 21359 0.68 0.615033
Target:  5'- gGCCUcgcUCGCCgcgaucagcGCUgCCGCGCCGAu -3'
miRNA:   3'- gCGGA---AGUGGaac------UGAaGGUGUGGCU- -5'
11909 3' -52.8 NC_003278.1 + 5793 0.69 0.524183
Target:  5'- cCGCCUuggUCAUCUUcGACgggUCCugGCCu- -3'
miRNA:   3'- -GCGGA---AGUGGAA-CUGa--AGGugUGGcu -5'
11909 3' -52.8 NC_003278.1 + 33174 0.7 0.513143
Target:  5'- gGCCUUCACCUucggUGA--UCCgAUGCCGGu -3'
miRNA:   3'- gCGGAAGUGGA----ACUgaAGG-UGUGGCU- -5'
11909 3' -52.8 NC_003278.1 + 20490 0.7 0.513143
Target:  5'- gGCgUUCACCgUGACUUUCGCGuaggucCCGGc -3'
miRNA:   3'- gCGgAAGUGGaACUGAAGGUGU------GGCU- -5'
11909 3' -52.8 NC_003278.1 + 21227 0.7 0.480627
Target:  5'- gCGCCUUCGCCggcguccugGGCUaCCuggGCAUCGAc -3'
miRNA:   3'- -GCGGAAGUGGaa-------CUGAaGG---UGUGGCU- -5'
11909 3' -52.8 NC_003278.1 + 18484 0.7 0.480627
Target:  5'- gCGUCUUCGgCggUGGCUaCCAgGCCGAu -3'
miRNA:   3'- -GCGGAAGUgGa-ACUGAaGGUgUGGCU- -5'
11909 3' -52.8 NC_003278.1 + 26284 0.7 0.470012
Target:  5'- aGCCUUCagcGCCUUGugUa--GCGCCGGg -3'
miRNA:   3'- gCGGAAG---UGGAACugAaggUGUGGCU- -5'
11909 3' -52.8 NC_003278.1 + 12612 0.71 0.43891
Target:  5'- gGCUUUCACggUGGCcaCCGCAUCGAa -3'
miRNA:   3'- gCGGAAGUGgaACUGaaGGUGUGGCU- -5'
11909 3' -52.8 NC_003278.1 + 34846 1.09 0.001055
Target:  5'- uCGCCUUCACCUUGACUUCCACACCGAc -3'
miRNA:   3'- -GCGGAAGUGGAACUGAAGGUGUGGCU- -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.