miRNA display CGI


Results 1 - 20 of 48 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
12994 3' -54.2 NC_003387.1 + 1295 0.7 0.552911
Target:  5'- gCGCCUCGAcgCCcuggCGGGcGACGUCgACGa -3'
miRNA:   3'- -GCGGAGUUa-GGa---GCCC-UUGCAG-UGCg -5'
12994 3' -54.2 NC_003387.1 + 1754 0.72 0.459429
Target:  5'- gGCCgcuAUCggCUCGGGGGCGcuUCGCGCu -3'
miRNA:   3'- gCGGaguUAG--GAGCCCUUGC--AGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 2976 0.69 0.640286
Target:  5'- gGCCUCG---CUCGGGGccucGCGagGCGCu -3'
miRNA:   3'- gCGGAGUuagGAGCCCU----UGCagUGCG- -5'
12994 3' -54.2 NC_003387.1 + 3506 0.67 0.734488
Target:  5'- cCGCCUCGAccggcagaUCCguugCGGGcucagcAACGUCgacggccgccgccuGCGCg -3'
miRNA:   3'- -GCGGAGUU--------AGGa---GCCC------UUGCAG--------------UGCG- -5'
12994 3' -54.2 NC_003387.1 + 10426 0.71 0.510457
Target:  5'- aCGCCUUGAUCgUCGGG-GCGaaauagucgCACGUa -3'
miRNA:   3'- -GCGGAGUUAGgAGCCCuUGCa--------GUGCG- -5'
12994 3' -54.2 NC_003387.1 + 11333 0.67 0.748078
Target:  5'- gCGCCUCGGUCgCcCGGcGcuCGgccUCACGCu -3'
miRNA:   3'- -GCGGAGUUAG-GaGCC-CuuGC---AGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 11509 0.67 0.716458
Target:  5'- uGCCUaCGAUCgUCGGccuGCGUguCGCc -3'
miRNA:   3'- gCGGA-GUUAGgAGCCcu-UGCAguGCG- -5'
12994 3' -54.2 NC_003387.1 + 11692 0.68 0.662244
Target:  5'- uCGCCgCGGUCgUCGGGcucGCuGUCGCGa -3'
miRNA:   3'- -GCGGaGUUAGgAGCCCu--UG-CAGUGCg -5'
12994 3' -54.2 NC_003387.1 + 11852 0.7 0.542186
Target:  5'- uCGCCgcggaAAUCCgaccacauugugUCGGuGAgcGCGUCGCGCa -3'
miRNA:   3'- -GCGGag---UUAGG------------AGCC-CU--UGCAGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 12169 0.84 0.084374
Target:  5'- gCGCCUCGAacgCCUCGGGG--GUCACGCc -3'
miRNA:   3'- -GCGGAGUUa--GGAGCCCUugCAGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 17102 0.74 0.357744
Target:  5'- cCGCCUCGGcgggcUCCUCGGGGcCGUaggcgauCGCu -3'
miRNA:   3'- -GCGGAGUU-----AGGAGCCCUuGCAgu-----GCG- -5'
12994 3' -54.2 NC_003387.1 + 18135 0.66 0.768589
Target:  5'- cCGCCUCGuUCCaccgCGGGuaaccCGUCAUcgGCc -3'
miRNA:   3'- -GCGGAGUuAGGa---GCCCuu---GCAGUG--CG- -5'
12994 3' -54.2 NC_003387.1 + 19124 0.67 0.727097
Target:  5'- uGCCaCA--CCUcggCGGGAucuuCGUCGCGCa -3'
miRNA:   3'- gCGGaGUuaGGA---GCCCUu---GCAGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 19257 0.66 0.787557
Target:  5'- cCGCCUCGGcgaCUUCGGccgccuugcgcgaGGugGUgGCGCg -3'
miRNA:   3'- -GCGGAGUUa--GGAGCC-------------CUugCAgUGCG- -5'
12994 3' -54.2 NC_003387.1 + 20460 0.66 0.778641
Target:  5'- aCGCCUUGucggCCUCGGcGACGgcCAgGCg -3'
miRNA:   3'- -GCGGAGUua--GGAGCCcUUGCa-GUgCG- -5'
12994 3' -54.2 NC_003387.1 + 20811 0.67 0.73764
Target:  5'- aGCCaccgcUCGGagCagGGGAuACGUCGCGCg -3'
miRNA:   3'- gCGG-----AGUUagGagCCCU-UGCAGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 21690 0.66 0.807841
Target:  5'- aCGCC-CuggccgCCUCGGcGAGCGcggccCGCGCc -3'
miRNA:   3'- -GCGGaGuua---GGAGCC-CUUGCa----GUGCG- -5'
12994 3' -54.2 NC_003387.1 + 23032 0.76 0.259338
Target:  5'- gCGCCUCGA-CCUCGGccACGUCgACGUc -3'
miRNA:   3'- -GCGGAGUUaGGAGCCcuUGCAG-UGCG- -5'
12994 3' -54.2 NC_003387.1 + 23555 0.68 0.696026
Target:  5'- cCGuCCUCGAUCgUCGGGucggcgaaugccguUGUCAUGUc -3'
miRNA:   3'- -GC-GGAGUUAGgAGCCCuu------------GCAGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 23735 0.66 0.778641
Target:  5'- gCGCaggCGAUCCagCGGucGGGCGUCcCGCa -3'
miRNA:   3'- -GCGga-GUUAGGa-GCC--CUUGCAGuGCG- -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.