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
11403 5' -54.2 NC_003085.1 + 22374 0.66 0.787391
Target:  5'- aUGCCcucGGACGUCGUCugGAaaaGGCGa- -3'
miRNA:   3'- gACGG---CUUGCAGCAGugCUc--CUGUcu -5'
11403 5' -54.2 NC_003085.1 + 9601 0.66 0.767269
Target:  5'- --cCCGGACGcuucUCGUC-CGGGGugAGGc -3'
miRNA:   3'- gacGGCUUGC----AGCAGuGCUCCugUCU- -5'
11403 5' -54.2 NC_003085.1 + 40784 0.66 0.746586
Target:  5'- gUGCgCGcacGCGUCG-CGCGcGGACGGGc -3'
miRNA:   3'- gACG-GCu--UGCAGCaGUGCuCCUGUCU- -5'
11403 5' -54.2 NC_003085.1 + 44246 0.67 0.725432
Target:  5'- cCUGCCGGGcCG-CGUCGCGcucGGACu-- -3'
miRNA:   3'- -GACGGCUU-GCaGCAGUGCu--CCUGucu -5'
11403 5' -54.2 NC_003085.1 + 29673 0.67 0.714709
Target:  5'- aUGUCGGGCGUCcaccUCGCGAcGugGGAg -3'
miRNA:   3'- gACGGCUUGCAGc---AGUGCUcCugUCU- -5'
11403 5' -54.2 NC_003085.1 + 19999 0.67 0.714709
Target:  5'- cCUGCCGc-CGUCGUCGUGGGGccGCAa- -3'
miRNA:   3'- -GACGGCuuGCAGCAGUGCUCC--UGUcu -5'
11403 5' -54.2 NC_003085.1 + 41553 0.67 0.68209
Target:  5'- gCUGCCGccgcGGCGgcaGUCGCGGGaGcCAGAg -3'
miRNA:   3'- -GACGGC----UUGCag-CAGUGCUC-CuGUCU- -5'
11403 5' -54.2 NC_003085.1 + 30336 0.68 0.660085
Target:  5'- cCUGgCGGACGcUGUCGCGGGGcGCAc- -3'
miRNA:   3'- -GACgGCUUGCaGCAGUGCUCC-UGUcu -5'
11403 5' -54.2 NC_003085.1 + 6107 0.68 0.660085
Target:  5'- uUGCCGccuACGaCGcCGCGAaGGGCGGGg -3'
miRNA:   3'- gACGGCu--UGCaGCaGUGCU-CCUGUCU- -5'
11403 5' -54.2 NC_003085.1 + 26693 0.68 0.656773
Target:  5'- gCUGCCGucgccaccgcggcgGGCGUCGUCggcGCGGGuGuCGGAg -3'
miRNA:   3'- -GACGGC--------------UUGCAGCAG---UGCUC-CuGUCU- -5'
11403 5' -54.2 NC_003085.1 + 8587 0.68 0.649037
Target:  5'- aUGCCGc-CGUCGUC-CGAGcgcgugguGACGGAg -3'
miRNA:   3'- gACGGCuuGCAGCAGuGCUC--------CUGUCU- -5'
11403 5' -54.2 NC_003085.1 + 21596 0.68 0.649037
Target:  5'- gCUGcCCGGgguACGUCGgcaccgUCACGAGGAguGc -3'
miRNA:   3'- -GAC-GGCU---UGCAGC------AGUGCUCCUguCu -5'
11403 5' -54.2 NC_003085.1 + 45132 0.69 0.615841
Target:  5'- uUGCCGu-CGUCGUCGacgaaGAGGuGCAGc -3'
miRNA:   3'- gACGGCuuGCAGCAGUg----CUCC-UGUCu -5'
11403 5' -54.2 NC_003085.1 + 3934 0.69 0.582772
Target:  5'- -aGCCGAGCGccgcggcgaugUUGUCGCGgcccgGGGAUGGAg -3'
miRNA:   3'- gaCGGCUUGC-----------AGCAGUGC-----UCCUGUCU- -5'
11403 5' -54.2 NC_003085.1 + 3458 0.7 0.517965
Target:  5'- cCUGcCCGGcCGUCGUCACccuguGGGGAgAGGc -3'
miRNA:   3'- -GAC-GGCUuGCAGCAGUG-----CUCCUgUCU- -5'
11403 5' -54.2 NC_003085.1 + 34299 0.71 0.476381
Target:  5'- -cGCCGAGCGUCG-CGgGcAGGGCAc- -3'
miRNA:   3'- gaCGGCUUGCAGCaGUgC-UCCUGUcu -5'
11403 5' -54.2 NC_003085.1 + 48934 1.09 0.001354
Target:  5'- gCUGCCGAACGUCGUCACGAGGACAGAc -3'
miRNA:   3'- -GACGGCUUGCAGCAGUGCUCCUGUCU- -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.