miRNA display CGI


Results 1 - 20 of 79 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
23238 3' -64.2 NC_005259.1 + 64758 0.66 0.350164
Target:  5'- cCGCGCCUcgCGACggUGCGCCucGGCg- -3'
miRNA:   3'- cGCGCGGGa-GCUG--GCGCGGcuCCGag -5'
23238 3' -64.2 NC_005259.1 + 36512 0.66 0.334889
Target:  5'- gGCGUGUCCUUGAaccacCCGCGCggugugacacgCGGGGUg- -3'
miRNA:   3'- -CGCGCGGGAGCU-----GGCGCG-----------GCUCCGag -5'
23238 3' -64.2 NC_005259.1 + 48401 0.66 0.328176
Target:  5'- cCGaCGCCCgccgucgagucaccgCGACCGCcaccaCCGAGGCg- -3'
miRNA:   3'- cGC-GCGGGa--------------GCUGGCGc----GGCUCCGag -5'
23238 3' -64.2 NC_005259.1 + 38817 0.66 0.350164
Target:  5'- cCGCGCCCgcgaUGACCGaGUCGAuGGCc- -3'
miRNA:   3'- cGCGCGGGa---GCUGGCgCGGCU-CCGag -5'
23238 3' -64.2 NC_005259.1 + 27858 0.66 0.357985
Target:  5'- cGCGCGCCgUaCGACCGC-CCucuuGGGUg- -3'
miRNA:   3'- -CGCGCGGgA-GCUGGCGcGGc---UCCGag -5'
23238 3' -64.2 NC_005259.1 + 16371 0.66 0.357985
Target:  5'- uGCGUGCC----GCUGCGCCGAcGaGCUCc -3'
miRNA:   3'- -CGCGCGGgagcUGGCGCGGCU-C-CGAG- -5'
23238 3' -64.2 NC_005259.1 + 26799 0.66 0.326698
Target:  5'- aGCGCcgccGCCCggUUGGCCgguaccggcggugGUGCCGGGGCg- -3'
miRNA:   3'- -CGCG----CGGG--AGCUGG-------------CGCGGCUCCGag -5'
23238 3' -64.2 NC_005259.1 + 46903 0.66 0.362736
Target:  5'- -aGCGCCCgccgagcaguccgCGugCGcCGCCGAG-CUUg -3'
miRNA:   3'- cgCGCGGGa------------GCugGC-GCGGCUCcGAG- -5'
23238 3' -64.2 NC_005259.1 + 46978 0.66 0.365927
Target:  5'- cGC-CGCCgaUGAUCGgGCCGAGGgUg -3'
miRNA:   3'- -CGcGCGGgaGCUGGCgCGGCUCCgAg -5'
23238 3' -64.2 NC_005259.1 + 64018 0.66 0.334889
Target:  5'- cCGCGCCCga-GgCGCGgCGAGGC-Cg -3'
miRNA:   3'- cGCGCGGGagcUgGCGCgGCUCCGaG- -5'
23238 3' -64.2 NC_005259.1 + 33139 0.66 0.326698
Target:  5'- cGCGCGUgaucuugCCguaGACCGC-CUGAGGCa- -3'
miRNA:   3'- -CGCGCG-------GGag-CUGGCGcGGCUCCGag -5'
23238 3' -64.2 NC_005259.1 + 14317 0.66 0.365927
Target:  5'- gGC-CGCCCUCGACgC-CGCCGcccgcgugcGGGC-Cg -3'
miRNA:   3'- -CGcGCGGGAGCUG-GcGCGGC---------UCCGaG- -5'
23238 3' -64.2 NC_005259.1 + 33571 0.66 0.373991
Target:  5'- --cCGCCCgaacUUGACCGCGUCGcGGGC-Ca -3'
miRNA:   3'- cgcGCGGG----AGCUGGCGCGGC-UCCGaG- -5'
23238 3' -64.2 NC_005259.1 + 28329 0.66 0.350164
Target:  5'- uGUGcCGUCCUUGGCgGCGaaauCGAGGC-Ca -3'
miRNA:   3'- -CGC-GCGGGAGCUGgCGCg---GCUCCGaG- -5'
23238 3' -64.2 NC_005259.1 + 15728 0.66 0.349388
Target:  5'- gGCGCGCgacaucgauuuCCUCG-CCGCcuacgagGCCGGGGaggaUCu -3'
miRNA:   3'- -CGCGCG-----------GGAGCuGGCG-------CGGCUCCg---AG- -5'
23238 3' -64.2 NC_005259.1 + 34554 0.66 0.357985
Target:  5'- aGCuuGCCgUCGggGCCGaCGgCGAGGUUCu -3'
miRNA:   3'- -CGcgCGGgAGC--UGGC-GCgGCUCCGAG- -5'
23238 3' -64.2 NC_005259.1 + 50518 0.66 0.373991
Target:  5'- uGCGCuGCaCCUCGACgCGCucGCCucGGGCg- -3'
miRNA:   3'- -CGCG-CG-GGAGCUG-GCG--CGGc-UCCGag -5'
23238 3' -64.2 NC_005259.1 + 61133 0.66 0.357985
Target:  5'- gGUGcCGUUCUCGAuCCGUGCCGA--CUCa -3'
miRNA:   3'- -CGC-GCGGGAGCU-GGCGCGGCUccGAG- -5'
23238 3' -64.2 NC_005259.1 + 12951 0.66 0.371559
Target:  5'- uGCGCGaCCCcgcaUCGAccCCGCGUCGgaagcgcccaccguGGuGCUCg -3'
miRNA:   3'- -CGCGC-GGG----AGCU--GGCGCGGC--------------UC-CGAG- -5'
23238 3' -64.2 NC_005259.1 + 24828 0.66 0.355626
Target:  5'- cCGUGCCCgcacCGACCaaGCaguccgugcgcuacGCCGAGGCcCg -3'
miRNA:   3'- cGCGCGGGa---GCUGG--CG--------------CGGCUCCGaG- -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.