miRNA display CGI


Results 1 - 14 of 14 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
27562 3' -52.3 NC_005882.1 + 9889 0.66 0.795909
Target:  5'- uGGUCGggCAGAUCGccGAcgCgACGGg -3'
miRNA:   3'- gCCAGCgaGUCUAGCa-CUuaG-UGCCg -5'
27562 3' -52.3 NC_005882.1 + 22739 0.66 0.785734
Target:  5'- uCGaG-CGCUUgcgGGAUCGUGAAgC-CGGCg -3'
miRNA:   3'- -GC-CaGCGAG---UCUAGCACUUaGuGCCG- -5'
27562 3' -52.3 NC_005882.1 + 27319 0.66 0.785734
Target:  5'- gCGGgugUGCUCGGGUgGUucGGcgUugGGCu -3'
miRNA:   3'- -GCCa--GCGAGUCUAgCA--CUuaGugCCG- -5'
27562 3' -52.3 NC_005882.1 + 4525 0.66 0.775386
Target:  5'- aGGUCG---AGGUCGUcGAGgcugCGCGGCc -3'
miRNA:   3'- gCCAGCgagUCUAGCA-CUUa---GUGCCG- -5'
27562 3' -52.3 NC_005882.1 + 18529 0.67 0.743432
Target:  5'- cCGGcUUGCccgCcGAacUgGUGAAUCGCGGCg -3'
miRNA:   3'- -GCC-AGCGa--GuCU--AgCACUUAGUGCCG- -5'
27562 3' -52.3 NC_005882.1 + 33516 0.67 0.743432
Target:  5'- cCGG-CGCUCcGAUUGUGAucGUCGCa-- -3'
miRNA:   3'- -GCCaGCGAGuCUAGCACU--UAGUGccg -5'
27562 3' -52.3 NC_005882.1 + 26596 0.67 0.736899
Target:  5'- gGGcCGCuuUCAGAcgcagauugcggaccUCG-GGAUCACGGUu -3'
miRNA:   3'- gCCaGCG--AGUCU---------------AGCaCUUAGUGCCG- -5'
27562 3' -52.3 NC_005882.1 + 11356 0.68 0.687916
Target:  5'- uGGUCGC-CAGucacGUCGaGGAUCuuGGCc -3'
miRNA:   3'- gCCAGCGaGUC----UAGCaCUUAGugCCG- -5'
27562 3' -52.3 NC_005882.1 + 33715 0.68 0.665216
Target:  5'- cCGGUCGUcgcgaguuucgUCGuGUUGUcGAAUUGCGGCg -3'
miRNA:   3'- -GCCAGCG-----------AGUcUAGCA-CUUAGUGCCG- -5'
27562 3' -52.3 NC_005882.1 + 26308 0.68 0.660657
Target:  5'- aGGcUCGCUgCAGAUCGcacaGAAguucaucgcuucgCGCGGCg -3'
miRNA:   3'- gCC-AGCGA-GUCUAGCa---CUUa------------GUGCCG- -5'
27562 3' -52.3 NC_005882.1 + 22544 0.69 0.585311
Target:  5'- cCGGcUCGCggcccgucaAGGUCGUGAAgu-CGGCg -3'
miRNA:   3'- -GCC-AGCGag-------UCUAGCACUUaguGCCG- -5'
27562 3' -52.3 NC_005882.1 + 21746 0.7 0.528172
Target:  5'- gGGcCGCUCGGGUCGccGAucgucagcuuguuGUCGCGGa -3'
miRNA:   3'- gCCaGCGAGUCUAGCa-CU-------------UAGUGCCg -5'
27562 3' -52.3 NC_005882.1 + 15698 0.74 0.34983
Target:  5'- cCGGUCGCgCGGA-CGUccgGGAUgCGCGGCa -3'
miRNA:   3'- -GCCAGCGaGUCUaGCA---CUUA-GUGCCG- -5'
27562 3' -52.3 NC_005882.1 + 4619 1.13 0.000711
Target:  5'- gCGGUCGCUCAGAUCGUGAAUCACGGCg -3'
miRNA:   3'- -GCCAGCGAGUCUAGCACUUAGUGCCG- -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.