miRNA display CGI


Results 1 - 20 of 21 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
27421 5' -62.2 NC_005869.1 + 17376 0.66 0.258184
Target:  5'- cCGCUCcagcGCCgcgGCCgCgCUgaGCuGCGGCg -3'
miRNA:   3'- -GCGAGu---CGGa--CGG-G-GAgaCGuCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 9419 0.66 0.251627
Target:  5'- gCGCUCGauGaCCUcGCCCCgcaUGCGGC-GCa -3'
miRNA:   3'- -GCGAGU--C-GGA-CGGGGag-ACGUCGcCG- -5'
27421 5' -62.2 NC_005869.1 + 17554 0.66 0.238924
Target:  5'- gGCgguggCAGCgCcGCCCgC-CcGCAGCGGCg -3'
miRNA:   3'- gCGa----GUCG-GaCGGG-GaGaCGUCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 18762 0.66 0.238924
Target:  5'- cCGCccCGGCCcccgcgGCUCCUgUGCGuCGGCg -3'
miRNA:   3'- -GCGa-GUCGGa-----CGGGGAgACGUcGCCG- -5'
27421 5' -62.2 NC_005869.1 + 29273 0.66 0.238924
Target:  5'- gGcCUCAGUCUGCaagucacagcuCCC-CUGCAGUuccagGGCa -3'
miRNA:   3'- gC-GAGUCGGACG-----------GGGaGACGUCG-----CCG- -5'
27421 5' -62.2 NC_005869.1 + 12135 0.66 0.232776
Target:  5'- -cCUCGGUgCUGCCCaugcCUGC-GCGGCu -3'
miRNA:   3'- gcGAGUCG-GACGGGga--GACGuCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 7258 0.66 0.226762
Target:  5'- gGUUCuG-CUGCCgCCgCUGCuGCGGCc -3'
miRNA:   3'- gCGAGuCgGACGG-GGaGACGuCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 16556 0.67 0.22088
Target:  5'- cCGCUcCAGCacccacgccGCCCCUagccccGCGGCGGUc -3'
miRNA:   3'- -GCGA-GUCGga-------CGGGGAga----CGUCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 11704 0.67 0.22088
Target:  5'- aGCauggCGGCgaGCUCUgaagCUGgGGCGGCg -3'
miRNA:   3'- gCGa---GUCGgaCGGGGa---GACgUCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 27556 0.67 0.215128
Target:  5'- aCGCUgCAGaacuCCaGCuCCCUUccccGCAGCGGCg -3'
miRNA:   3'- -GCGA-GUC----GGaCG-GGGAGa---CGUCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 13220 0.68 0.183264
Target:  5'- gGCUCGcGCC-GCUCCagcCUGgcCAGCGGCg -3'
miRNA:   3'- gCGAGU-CGGaCGGGGa--GAC--GUCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 16658 0.68 0.178377
Target:  5'- aGCUCAGCgCgGCCgCggcgCUGgAGCGGg -3'
miRNA:   3'- gCGAGUCG-GaCGGgGa---GACgUCGCCg -5'
27421 5' -62.2 NC_005869.1 + 17823 0.68 0.164405
Target:  5'- gGUUCcGCgUGgCgCCUCggcGCAGCGGCg -3'
miRNA:   3'- gCGAGuCGgACgG-GGAGa--CGUCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 20365 0.69 0.155644
Target:  5'- gGCggaGGCgacGCUCC-CUGCGGCGGCg -3'
miRNA:   3'- gCGag-UCGga-CGGGGaGACGUCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 12275 0.69 0.143295
Target:  5'- cCGCUCggGGCC-GCacaCCUucCUGCAgGCGGCg -3'
miRNA:   3'- -GCGAG--UCGGaCGg--GGA--GACGU-CGCCG- -5'
27421 5' -62.2 NC_005869.1 + 2575 0.7 0.114628
Target:  5'- gGCUCGGCgCUGCgCCCagcGCuuGCGGCa -3'
miRNA:   3'- gCGAGUCG-GACG-GGGagaCGu-CGCCG- -5'
27421 5' -62.2 NC_005869.1 + 8511 0.71 0.108347
Target:  5'- uGC-CGGCCUccGCggCCUCgGCGGCGGCg -3'
miRNA:   3'- gCGaGUCGGA--CGg-GGAGaCGUCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 24455 0.72 0.091389
Target:  5'- aGCUCAGCC-GCCgC-CUGgaAGCGGCc -3'
miRNA:   3'- gCGAGUCGGaCGGgGaGACg-UCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 18113 0.72 0.086318
Target:  5'- cCGCUUGGCCUugcGCCgCUUCUuCAGCGGUu -3'
miRNA:   3'- -GCGAGUCGGA---CGG-GGAGAcGUCGCCG- -5'
27421 5' -62.2 NC_005869.1 + 9806 0.75 0.049852
Target:  5'- gCGgUCGGCCaUGCCCCaggccuccugCUgGCAGCGGCc -3'
miRNA:   3'- -GCgAGUCGG-ACGGGGa---------GA-CGUCGCCG- -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.