miRNA display CGI


Results 1 - 20 of 50 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
11520 3' -63.3 NC_003085.1 + 451 0.69 0.218001
Target:  5'- cACGGCGCggaggGCCaGCCGgcgCUGUUGCaGGu -3'
miRNA:   3'- cUGCCGCG-----CGGgCGGCa--GACAGCG-CC- -5'
11520 3' -63.3 NC_003085.1 + 621 0.66 0.320568
Target:  5'- --gGGCGCGCUCGagG-CUGgCGCGGa -3'
miRNA:   3'- cugCCGCGCGGGCggCaGACaGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 1041 0.7 0.182246
Target:  5'- cGGCGGCGUGuCCUGCCccggcagcggccuGUCUGgcacccggaCGCGGc -3'
miRNA:   3'- -CUGCCGCGC-GGGCGG-------------CAGACa--------GCGCC- -5'
11520 3' -63.3 NC_003085.1 + 2153 0.67 0.285066
Target:  5'- cGGCGGCuGCGCUCGUcgCGUCaccGUC-CGGg -3'
miRNA:   3'- -CUGCCG-CGCGGGCG--GCAGa--CAGcGCC- -5'
11520 3' -63.3 NC_003085.1 + 3485 0.67 0.271759
Target:  5'- cGACGucuGCGUcgacuacaaGCUCGCCGUCUGgcgucUCGCGa -3'
miRNA:   3'- -CUGC---CGCG---------CGGGCGGCAGAC-----AGCGCc -5'
11520 3' -63.3 NC_003085.1 + 3873 1.09 0.000188
Target:  5'- cGACGGCGCGCCCGCCGUCUGUCGCGGu -3'
miRNA:   3'- -CUGCCGCGCGGGCGGCAGACAGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 3940 0.75 0.076325
Target:  5'- aGACGGCGgGCgCGCCGUCgacgcGcCGUGGu -3'
miRNA:   3'- -CUGCCGCgCGgGCGGCAGa----CaGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 5369 0.67 0.278349
Target:  5'- -uCGGCGCGUCCGgucCCGUCaccGUCGaGGc -3'
miRNA:   3'- cuGCCGCGCGGGC---GGCAGa--CAGCgCC- -5'
11520 3' -63.3 NC_003085.1 + 5574 0.66 0.351282
Target:  5'- aACGGUGCGCCaCGUCuacgccCUGgUGCGGa -3'
miRNA:   3'- cUGCCGCGCGG-GCGGca----GACaGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 5707 0.72 0.130404
Target:  5'- cGAUGGCGgGaCUCgGCCGUCUacUCGCGGg -3'
miRNA:   3'- -CUGCCGCgC-GGG-CGGCAGAc-AGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 7492 0.66 0.320568
Target:  5'- uGACGG-GCGUCCG-CGUCgagcgGUUGCaGGa -3'
miRNA:   3'- -CUGCCgCGCGGGCgGCAGa----CAGCG-CC- -5'
11520 3' -63.3 NC_003085.1 + 7759 0.67 0.278349
Target:  5'- gGACGGcCGUGUCaucaGCCaUC-GUCGCGGc -3'
miRNA:   3'- -CUGCC-GCGCGGg---CGGcAGaCAGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 12022 0.68 0.24068
Target:  5'- -cUGGCGCaCCUGCCGgugCUG-CGCGa -3'
miRNA:   3'- cuGCCGCGcGGGCGGCa--GACaGCGCc -5'
11520 3' -63.3 NC_003085.1 + 12294 0.74 0.09223
Target:  5'- cGACGGCGCggugGUCCGCUGg--GUUGCGGc -3'
miRNA:   3'- -CUGCCGCG----CGGGCGGCagaCAGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 12674 0.66 0.351282
Target:  5'- -cCGGgGCGCCaCGCgCGUCaGUCggaccacgagcaGCGGu -3'
miRNA:   3'- cuGCCgCGCGG-GCG-GCAGaCAG------------CGCC- -5'
11520 3' -63.3 NC_003085.1 + 13791 0.66 0.320568
Target:  5'- aGGCGaGCGUGa-CGCCaGUCUG-CGUGGa -3'
miRNA:   3'- -CUGC-CGCGCggGCGG-CAGACaGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 13931 0.66 0.310304
Target:  5'- gGACGGgGCGCgCGCCGaagaagaaGCGGa -3'
miRNA:   3'- -CUGCCgCGCGgGCGGCagacag--CGCC- -5'
11520 3' -63.3 NC_003085.1 + 14051 0.69 0.202211
Target:  5'- cGACGGCGUGUCCGUCGaggccaUCUGcgaGCGc -3'
miRNA:   3'- -CUGCCGCGCGGGCGGC------AGACag-CGCc -5'
11520 3' -63.3 NC_003085.1 + 15196 0.67 0.271759
Target:  5'- -cCGGUGCGCCagCGCCG-Cgc-CGCGGa -3'
miRNA:   3'- cuGCCGCGCGG--GCGGCaGacaGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 16541 0.66 0.313211
Target:  5'- aGGCGGCGCGCaggucggacaCUGCCGUCgccucgaaUGaCGuCGGc -3'
miRNA:   3'- -CUGCCGCGCG----------GGCGGCAG--------ACaGC-GCC- -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.