miRNA display CGI


Results 1 - 17 of 17 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
7171 3' -56.2 NC_001900.1 + 2135 0.66 0.698893
Target:  5'- aGGGCUUucuCgCgGUCGAaacgcACCCGAGGg -3'
miRNA:   3'- aCCUGAAccuG-GgCAGCU-----UGGGCUCC- -5'
7171 3' -56.2 NC_001900.1 + 38917 0.66 0.688195
Target:  5'- cGGACUcgcaGGCCaggcaGUUGAACCCuugGAGGu -3'
miRNA:   3'- aCCUGAac--CUGGg----CAGCUUGGG---CUCC- -5'
7171 3' -56.2 NC_001900.1 + 28020 0.66 0.666651
Target:  5'- cGGGC-UGGugCCcagGAACCaCGGGGa -3'
miRNA:   3'- aCCUGaACCugGGcagCUUGG-GCUCC- -5'
7171 3' -56.2 NC_001900.1 + 1071 0.66 0.66557
Target:  5'- aUGGGCggaagaGGAUCCGccgguagCGGcggugccccuggaACCCGAGGa -3'
miRNA:   3'- -ACCUGaa----CCUGGGCa------GCU-------------UGGGCUCC- -5'
7171 3' -56.2 NC_001900.1 + 1162 0.66 0.655827
Target:  5'- gUGGACUuggaggcggcggUGGAgCCGcCGGAagcggCCGGGGc -3'
miRNA:   3'- -ACCUGA------------ACCUgGGCaGCUUg----GGCUCC- -5'
7171 3' -56.2 NC_001900.1 + 48923 0.66 0.644982
Target:  5'- cGGGCcUGuauGGCCCGUagcCGAuUCCGGGGg -3'
miRNA:   3'- aCCUGaAC---CUGGGCA---GCUuGGGCUCC- -5'
7171 3' -56.2 NC_001900.1 + 37425 0.66 0.644982
Target:  5'- cGGGCUgGGugUCGcCGAugaACCCGAc- -3'
miRNA:   3'- aCCUGAaCCugGGCaGCU---UGGGCUcc -5'
7171 3' -56.2 NC_001900.1 + 44130 0.67 0.634125
Target:  5'- cGGAg--GGAgUCGcCuGAACCCGAGGu -3'
miRNA:   3'- aCCUgaaCCUgGGCaG-CUUGGGCUCC- -5'
7171 3' -56.2 NC_001900.1 + 12885 0.67 0.579997
Target:  5'- cUGaACcUGGGCaCCGUCGAgaGCCCGAa- -3'
miRNA:   3'- -ACcUGaACCUG-GGCAGCU--UGGGCUcc -5'
7171 3' -56.2 NC_001900.1 + 47357 0.68 0.547955
Target:  5'- uUGGGCUU-GACgCCGUCGAACUCcAGc -3'
miRNA:   3'- -ACCUGAAcCUG-GGCAGCUUGGGcUCc -5'
7171 3' -56.2 NC_001900.1 + 45351 0.68 0.537394
Target:  5'- gGGugUcgGuGACCgucaucuccaCGUCGAcCCCGAGGa -3'
miRNA:   3'- aCCugAa-C-CUGG----------GCAGCUuGGGCUCC- -5'
7171 3' -56.2 NC_001900.1 + 41106 0.69 0.51649
Target:  5'- cGGcCgUGGACCUuggucUCGAucACCCGAGGc -3'
miRNA:   3'- aCCuGaACCUGGGc----AGCU--UGGGCUCC- -5'
7171 3' -56.2 NC_001900.1 + 19981 0.69 0.495922
Target:  5'- gGGACaagUGGuuACCCuUCGGcuCCCGAGGc -3'
miRNA:   3'- aCCUGa--ACC--UGGGcAGCUu-GGGCUCC- -5'
7171 3' -56.2 NC_001900.1 + 10434 0.69 0.494903
Target:  5'- aGGACaUGGGCUacuccauCGcCGAGCgCGAGGa -3'
miRNA:   3'- aCCUGaACCUGG-------GCaGCUUGgGCUCC- -5'
7171 3' -56.2 NC_001900.1 + 28150 0.7 0.436638
Target:  5'- aGGAUUUGGGCCU--UGAGCCCuuGGu -3'
miRNA:   3'- aCCUGAACCUGGGcaGCUUGGGcuCC- -5'
7171 3' -56.2 NC_001900.1 + 39290 0.77 0.17511
Target:  5'- gGGACcaccgGGACCgCGcCGAGCCCGuGGg -3'
miRNA:   3'- aCCUGaa---CCUGG-GCaGCUUGGGCuCC- -5'
7171 3' -56.2 NC_001900.1 + 40467 1.11 0.000609
Target:  5'- uUGGACUUGGACCCGUCGAACCCGAGGg -3'
miRNA:   3'- -ACCUGAACCUGGGCAGCUUGGGCUCC- -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.