miRNA display CGI


Results 1 - 20 of 41 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
12339 5' -61.9 NC_003324.1 + 49087 0.66 0.415456
Target:  5'- -gCCGAaagcggcgucuauUUCGCuGCCgGUGACGCgaUCGCCa -3'
miRNA:   3'- uaGGCU-------------GGGCG-CGG-CACUGCG--AGCGG- -5'
12339 5' -61.9 NC_003324.1 + 30509 0.68 0.289434
Target:  5'- -aCUGcGCCUGCGaCCGUGGCGaccuUCGCUg -3'
miRNA:   3'- uaGGC-UGGGCGC-GGCACUGCg---AGCGG- -5'
12339 5' -61.9 NC_003324.1 + 36748 0.68 0.2964
Target:  5'- cAUCCGAUgCGagGcCCGUGgaGCGCUgGCCg -3'
miRNA:   3'- -UAGGCUGgGCg-C-GGCAC--UGCGAgCGG- -5'
12339 5' -61.9 NC_003324.1 + 19390 0.68 0.313647
Target:  5'- -gCCGGCgcgcgUCGCGCCGUgcaugaggucggcuaGAUGCUgCGCCu -3'
miRNA:   3'- uaGGCUG-----GGCGCGGCA---------------CUGCGA-GCGG- -5'
12339 5' -61.9 NC_003324.1 + 32186 0.67 0.364933
Target:  5'- -gCCGACgCGCGUCGUG-CGCg-GCa -3'
miRNA:   3'- uaGGCUGgGCGCGGCACuGCGagCGg -5'
12339 5' -61.9 NC_003324.1 + 31864 0.67 0.373192
Target:  5'- --aUGAUCUGCGCC-UGACGCUCuggGCUu -3'
miRNA:   3'- uagGCUGGGCGCGGcACUGCGAG---CGG- -5'
12339 5' -61.9 NC_003324.1 + 35302 0.66 0.381578
Target:  5'- aGUCCGA-UCGCGCCGgcgGAUug-CGCCg -3'
miRNA:   3'- -UAGGCUgGGCGCGGCa--CUGcgaGCGG- -5'
12339 5' -61.9 NC_003324.1 + 42576 0.66 0.397852
Target:  5'- -aCCGugCCgGCagccucgcuguagGCCGUGACGCgauacuUCGUCu -3'
miRNA:   3'- uaGGCugGG-CG-------------CGGCACUGCG------AGCGG- -5'
12339 5' -61.9 NC_003324.1 + 3545 0.66 0.39872
Target:  5'- -aCCGGCugcaaaCgGCGCUucgGUGGCGCcCGCCa -3'
miRNA:   3'- uaGGCUG------GgCGCGG---CACUGCGaGCGG- -5'
12339 5' -61.9 NC_003324.1 + 1657 0.68 0.282598
Target:  5'- -cUCGGCCUGCGCCugcUGACGCUgaCGgCg -3'
miRNA:   3'- uaGGCUGGGCGCGGc--ACUGCGA--GCgG- -5'
12339 5' -61.9 NC_003324.1 + 32260 0.7 0.232463
Target:  5'- -cCCcGgUCGUGUCGgGACGCUCGCCa -3'
miRNA:   3'- uaGGcUgGGCGCGGCaCUGCGAGCGG- -5'
12339 5' -61.9 NC_003324.1 + 4541 0.7 0.232463
Target:  5'- -aCCGACaagaugagCCGCGCCGUGaucgaGCGCgCGCa -3'
miRNA:   3'- uaGGCUG--------GGCGCGGCAC-----UGCGaGCGg -5'
12339 5' -61.9 NC_003324.1 + 35851 0.73 0.139161
Target:  5'- gAUUCGACCUGCGCCuggcgaacaGUGGCGC--GCCa -3'
miRNA:   3'- -UAGGCUGGGCGCGG---------CACUGCGagCGG- -5'
12339 5' -61.9 NC_003324.1 + 54862 0.73 0.150567
Target:  5'- uUCCGAcCCCGCaggcCCG-GAUGCUCGCg -3'
miRNA:   3'- uAGGCU-GGGCGc---GGCaCUGCGAGCGg -5'
12339 5' -61.9 NC_003324.1 + 47759 0.72 0.162817
Target:  5'- uUCuCGGCaCCGgGCCGUGAgGCU-GCCu -3'
miRNA:   3'- uAG-GCUG-GGCgCGGCACUgCGAgCGG- -5'
12339 5' -61.9 NC_003324.1 + 33423 0.72 0.175956
Target:  5'- -cCCGAgCCGCuucaucggcguuGuCCGUGuaACGCUCGCCg -3'
miRNA:   3'- uaGGCUgGGCG------------C-GGCAC--UGCGAGCGG- -5'
12339 5' -61.9 NC_003324.1 + 31681 0.71 0.178235
Target:  5'- cAUCCGAgaucggccgcaucCCCGUGCUgGUGACGCgaaccaccaggagCGCCg -3'
miRNA:   3'- -UAGGCU-------------GGGCGCGG-CACUGCGa------------GCGG- -5'
12339 5' -61.9 NC_003324.1 + 20590 0.71 0.194936
Target:  5'- ---gGAUCCgGUGCUGUGGCGCcgUCGCCa -3'
miRNA:   3'- uaggCUGGG-CGCGGCACUGCG--AGCGG- -5'
12339 5' -61.9 NC_003324.1 + 29420 0.71 0.205083
Target:  5'- gGUCuCGAUgCGCGCCGgGAacCGgUCGCCa -3'
miRNA:   3'- -UAG-GCUGgGCGCGGCaCU--GCgAGCGG- -5'
12339 5' -61.9 NC_003324.1 + 15133 0.7 0.232463
Target:  5'- -gUCGACaCgGCGCCacGUGAaaagGCUCGCCg -3'
miRNA:   3'- uaGGCUG-GgCGCGG--CACUg---CGAGCGG- -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.