miRNA display CGI


Results 1 - 20 of 38 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
13004 3' -57.6 NC_003387.1 + 52179 1.08 0.000596
Target:  5'- aCUGUCGAGCAGGUCGAGCAGGACGCUg -3'
miRNA:   3'- -GACAGCUCGUCCAGCUCGUCCUGCGA- -5'
13004 3' -57.6 NC_003387.1 + 25260 0.81 0.060849
Target:  5'- --aUCGAGguGGUCGGGCAGGuCGCa -3'
miRNA:   3'- gacAGCUCguCCAGCUCGUCCuGCGa -5'
13004 3' -57.6 NC_003387.1 + 19451 0.78 0.093309
Target:  5'- gUGUCGgggaucggcGGCAGGcCGGGCAGGACGUc -3'
miRNA:   3'- gACAGC---------UCGUCCaGCUCGUCCUGCGa -5'
13004 3' -57.6 NC_003387.1 + 717 0.78 0.104427
Target:  5'- -cGUCGAGggccgaCAGGUCGGGCAGGuGCGCc -3'
miRNA:   3'- gaCAGCUC------GUCCAGCUCGUCC-UGCGa -5'
13004 3' -57.6 NC_003387.1 + 18189 0.75 0.176146
Target:  5'- -cGUCGAGCGGGUCGAcggGCAGcccgaggaucgcGGCGCc -3'
miRNA:   3'- gaCAGCUCGUCCAGCU---CGUC------------CUGCGa -5'
13004 3' -57.6 NC_003387.1 + 42407 0.74 0.201272
Target:  5'- aCUGagGAGCAGuUCGAGCAGGccCGCa -3'
miRNA:   3'- -GACagCUCGUCcAGCUCGUCCu-GCGa -5'
13004 3' -57.6 NC_003387.1 + 21299 0.72 0.254344
Target:  5'- -cGUCGAGgccGUCGAGCAGuGGCGCg -3'
miRNA:   3'- gaCAGCUCgucCAGCUCGUC-CUGCGa -5'
13004 3' -57.6 NC_003387.1 + 37828 0.71 0.288518
Target:  5'- -cGUCGugcagcAGCAGGUCGAGCAGuuggcuguuGCGCa -3'
miRNA:   3'- gaCAGC------UCGUCCAGCUCGUCc--------UGCGa -5'
13004 3' -57.6 NC_003387.1 + 636 0.71 0.295772
Target:  5'- -aGUgGGGCAggcGGUCGAGUAGGGCcuGCa -3'
miRNA:   3'- gaCAgCUCGU---CCAGCUCGUCCUG--CGa -5'
13004 3' -57.6 NC_003387.1 + 52204 0.71 0.303166
Target:  5'- nUGUCGAGCAGGccgcUGAGCAGccUGCUg -3'
miRNA:   3'- gACAGCUCGUCCa---GCUCGUCcuGCGA- -5'
13004 3' -57.6 NC_003387.1 + 39406 0.7 0.326198
Target:  5'- cCUGgcgcgCGAGUGGGUCGAGguGaccgGGCGCc -3'
miRNA:   3'- -GACa----GCUCGUCCAGCUCguC----CUGCGa -5'
13004 3' -57.6 NC_003387.1 + 46295 0.7 0.342261
Target:  5'- -gGcCGAGCAGGcggCGcAGCGGGcCGCUg -3'
miRNA:   3'- gaCaGCUCGUCCa--GC-UCGUCCuGCGA- -5'
13004 3' -57.6 NC_003387.1 + 44017 0.69 0.401952
Target:  5'- -cGUCGAGCGgcucgucgacgucGGUCG-GCAGcGGCGUg -3'
miRNA:   3'- gaCAGCUCGU-------------CCAGCuCGUC-CUGCGa -5'
13004 3' -57.6 NC_003387.1 + 45994 0.69 0.402865
Target:  5'- aUGUCGAGCGGGgCGAGUc-GACGgUg -3'
miRNA:   3'- gACAGCUCGUCCaGCUCGucCUGCgA- -5'
13004 3' -57.6 NC_003387.1 + 43633 0.69 0.402865
Target:  5'- -cG-CGAGCGGGUCGAGgGacuGGCGCa -3'
miRNA:   3'- gaCaGCUCGUCCAGCUCgUc--CUGCGa -5'
13004 3' -57.6 NC_003387.1 + 16980 0.69 0.403779
Target:  5'- cCUGgcgCGGGCGGGcugcgucaucgacccCGAGCGGG-CGCUa -3'
miRNA:   3'- -GACa--GCUCGUCCa--------------GCUCGUCCuGCGA- -5'
13004 3' -57.6 NC_003387.1 + 13893 0.69 0.412062
Target:  5'- -cGcCGGGCAGGuUCGAcGuCGGGugGCg -3'
miRNA:   3'- gaCaGCUCGUCC-AGCU-C-GUCCugCGa -5'
13004 3' -57.6 NC_003387.1 + 301 0.68 0.459918
Target:  5'- -gGUCGAucgugaacgacaGCGGGUCGAGguGGuCGg- -3'
miRNA:   3'- gaCAGCU------------CGUCCAGCUCguCCuGCga -5'
13004 3' -57.6 NC_003387.1 + 16467 0.68 0.469841
Target:  5'- --cUUGAGCAuuUCGAGCAGGGCaGCg -3'
miRNA:   3'- gacAGCUCGUccAGCUCGUCCUG-CGa -5'
13004 3' -57.6 NC_003387.1 + 15619 0.67 0.479873
Target:  5'- -cGUCGAGCAcGUCGA---GGGCGCg -3'
miRNA:   3'- gaCAGCUCGUcCAGCUcguCCUGCGa -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.