miRNA display CGI


Results 1 - 16 of 16 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
11399 5' -60.6 NC_003084.1 + 46885 0.66 0.624074
Target:  5'- aCC-ACCGGUCGUGCGGUgaagCGCcGuCUGg -3'
miRNA:   3'- gGGuUGGCCAGCGCGUCG----GCGuC-GAU- -5'
11399 5' -60.6 NC_003084.1 + 664 0.66 0.583369
Target:  5'- uUCCAuccUCGGUUGUGCGGCCGUAa--- -3'
miRNA:   3'- -GGGUu--GGCCAGCGCGUCGGCGUcgau -5'
11399 5' -60.6 NC_003084.1 + 47156 0.66 0.569232
Target:  5'- gCCGACCGGgcaaaaCGCcaccuaaacucacCGGCCGCAGCc- -3'
miRNA:   3'- gGGUUGGCCa-----GCGc------------GUCGGCGUCGau -5'
11399 5' -60.6 NC_003084.1 + 2670 0.67 0.563198
Target:  5'- gCCAGCuCGGUuacCGUGUAGUgGguGCUGc -3'
miRNA:   3'- gGGUUG-GCCA---GCGCGUCGgCguCGAU- -5'
11399 5' -60.6 NC_003084.1 + 47732 0.67 0.553181
Target:  5'- aCCCAcGCCGGuuacguuaacUCGCGCcaccaagugcaaAGuuGCGGCUu -3'
miRNA:   3'- -GGGU-UGGCC----------AGCGCG------------UCggCGUCGAu -5'
11399 5' -60.6 NC_003084.1 + 99415 0.67 0.543219
Target:  5'- aCCAGgCGGUgCGCGCagacgaGGCCGCAauucGCg- -3'
miRNA:   3'- gGGUUgGCCA-GCGCG------UCGGCGU----CGau -5'
11399 5' -60.6 NC_003084.1 + 8977 0.67 0.513709
Target:  5'- uCCCaAGCCGGUCGCGagGGUCgGCGGa-- -3'
miRNA:   3'- -GGG-UUGGCCAGCGCg-UCGG-CGUCgau -5'
11399 5' -60.6 NC_003084.1 + 61420 0.68 0.494404
Target:  5'- gCUGAUCa-UCGUGCuGCCGCAGCUGa -3'
miRNA:   3'- gGGUUGGccAGCGCGuCGGCGUCGAU- -5'
11399 5' -60.6 NC_003084.1 + 102076 0.68 0.46609
Target:  5'- aCgUGACCGG-CGCG-AGCCGCGGUg- -3'
miRNA:   3'- -GgGUUGGCCaGCGCgUCGGCGUCGau -5'
11399 5' -60.6 NC_003084.1 + 18578 0.69 0.420862
Target:  5'- aCCAAacgaaaggcuCCGGcaaaacgugCGCGUAGCCGUAGCa- -3'
miRNA:   3'- gGGUU----------GGCCa--------GCGCGUCGGCGUCGau -5'
11399 5' -60.6 NC_003084.1 + 87102 0.7 0.394185
Target:  5'- gCCCAACCGauggUGCucgaugaacaguuGCAGCUGCAGCg- -3'
miRNA:   3'- -GGGUUGGCca--GCG-------------CGUCGGCGUCGau -5'
11399 5' -60.6 NC_003084.1 + 25342 0.72 0.269137
Target:  5'- gCCCGACaCGGUgGCG-GGCCGguGCg- -3'
miRNA:   3'- -GGGUUG-GCCAgCGCgUCGGCguCGau -5'
11399 5' -60.6 NC_003084.1 + 95135 0.74 0.211435
Target:  5'- aCCCAcgcCCGGUCGUGCaAGCCGcCGGgUAa -3'
miRNA:   3'- -GGGUu--GGCCAGCGCG-UCGGC-GUCgAU- -5'
11399 5' -60.6 NC_003084.1 + 53919 0.75 0.186785
Target:  5'- cUCCGgguuCUGGUCGCGCAGCuCGUGGCa- -3'
miRNA:   3'- -GGGUu---GGCCAGCGCGUCG-GCGUCGau -5'
11399 5' -60.6 NC_003084.1 + 105131 0.75 0.17324
Target:  5'- gCCCAACuCGGUCGUGCGGCUGUAc--- -3'
miRNA:   3'- -GGGUUG-GCCAGCGCGUCGGCGUcgau -5'
11399 5' -60.6 NC_003084.1 + 96478 1.08 0.000825
Target:  5'- uCCCAACCGGUCGCGCAGCCGCAGCUAg -3'
miRNA:   3'- -GGGUUGGCCAGCGCGUCGGCGUCGAU- -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.