miRNA display CGI


Results 1 - 20 of 31 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
21284 3' -46.6 NC_004778.3 + 14802 0.66 0.999857
Target:  5'- -aGUUUGuUGCUGGAAAAACGaucgauuggAGUGuACg -3'
miRNA:   3'- ugCGAGC-AUGACCUUUUUGU---------UCAC-UG- -5'
21284 3' -46.6 NC_004778.3 + 23929 0.66 0.999814
Target:  5'- aACGCcCGUACUcGAAAcGCGAGgcGGCg -3'
miRNA:   3'- -UGCGaGCAUGAcCUUUuUGUUCa-CUG- -5'
21284 3' -46.6 NC_004778.3 + 122408 0.66 0.999814
Target:  5'- aACaaUCGUACUcGAAAAGCGAGgucGGCg -3'
miRNA:   3'- -UGcgAGCAUGAcCUUUUUGUUCa--CUG- -5'
21284 3' -46.6 NC_004778.3 + 89396 0.66 0.99976
Target:  5'- uCGCUCgGUGCUGGugu-ACAAGcaUGAg -3'
miRNA:   3'- uGCGAG-CAUGACCuuuuUGUUC--ACUg -5'
21284 3' -46.6 NC_004778.3 + 25907 0.66 0.99976
Target:  5'- cACGCUCGUcGCUGGGcgcuuGCAGGcUGu- -3'
miRNA:   3'- -UGCGAGCA-UGACCUuuu--UGUUC-ACug -5'
21284 3' -46.6 NC_004778.3 + 52765 0.66 0.999608
Target:  5'- cACGCUC-UGCgGGAGAuACAcaaaguuauacuGGUGAUg -3'
miRNA:   3'- -UGCGAGcAUGaCCUUUuUGU------------UCACUG- -5'
21284 3' -46.6 NC_004778.3 + 98115 0.66 0.999599
Target:  5'- cGCGCUCGUucaaGCucaUGGAuuuguacAAAACGcauGUGACg -3'
miRNA:   3'- -UGCGAGCA----UG---ACCU-------UUUUGUu--CACUG- -5'
21284 3' -46.6 NC_004778.3 + 24325 0.67 0.999505
Target:  5'- aACGCcCGUACUcGAAAcGCGAGgucGGCg -3'
miRNA:   3'- -UGCGaGCAUGAcCUUUuUGUUCa--CUG- -5'
21284 3' -46.6 NC_004778.3 + 24126 0.67 0.999505
Target:  5'- aACGCcCGUACUcGAAAcGCGAGgucGGCg -3'
miRNA:   3'- -UGCGaGCAUGAcCUUUuUGUUCa--CUG- -5'
21284 3' -46.6 NC_004778.3 + 122248 0.67 0.999379
Target:  5'- aACGCUCGcACUuGAAAAGCGGGgucaaugcUGAUg -3'
miRNA:   3'- -UGCGAGCaUGAcCUUUUUGUUC--------ACUG- -5'
21284 3' -46.6 NC_004778.3 + 84198 0.67 0.999379
Target:  5'- uACGCUCG-ACUcGGGccuGCAGGaUGGCu -3'
miRNA:   3'- -UGCGAGCaUGA-CCUuuuUGUUC-ACUG- -5'
21284 3' -46.6 NC_004778.3 + 112055 0.67 0.999226
Target:  5'- -gGCuUCGUGCUGGgcGAcACAAuuuauGUGACg -3'
miRNA:   3'- ugCG-AGCAUGACCuuUU-UGUU-----CACUG- -5'
21284 3' -46.6 NC_004778.3 + 23863 0.67 0.999042
Target:  5'- aACGCcCGUACUcGAAAAGCGcGGUcGGCg -3'
miRNA:   3'- -UGCGaGCAUGAcCUUUUUGU-UCA-CUG- -5'
21284 3' -46.6 NC_004778.3 + 24060 0.67 0.999042
Target:  5'- aACGCcCGUACUcGAAAAGCGcGGUcGGCg -3'
miRNA:   3'- -UGCGaGCAUGAcCUUUUUGU-UCA-CUG- -5'
21284 3' -46.6 NC_004778.3 + 24391 0.68 0.997887
Target:  5'- aACGCUUGUACcaGAAAAGCAcGGUcGGCg -3'
miRNA:   3'- -UGCGAGCAUGacCUUUUUGU-UCA-CUG- -5'
21284 3' -46.6 NC_004778.3 + 99240 0.68 0.997415
Target:  5'- aACGCUCGUAUUuGuAAAGCGAGgucgcgcUGACg -3'
miRNA:   3'- -UGCGAGCAUGAcCuUUUUGUUC-------ACUG- -5'
21284 3' -46.6 NC_004778.3 + 20199 0.69 0.99413
Target:  5'- aACGCUCGUucccGAAAAGCGAGgucGGCg -3'
miRNA:   3'- -UGCGAGCAugacCUUUUUGUUCa--CUG- -5'
21284 3' -46.6 NC_004778.3 + 99980 0.69 0.99413
Target:  5'- aACGUUUGUACccGAAAAGCGAGUG-Cu -3'
miRNA:   3'- -UGCGAGCAUGacCUUUUUGUUCACuG- -5'
21284 3' -46.6 NC_004778.3 + 122323 0.7 0.989462
Target:  5'- gGCGCugcuuguuuucUCGUACUuGAAAAGCAAGgucGGCg -3'
miRNA:   3'- -UGCG-----------AGCAUGAcCUUUUUGUUCa--CUG- -5'
21284 3' -46.6 NC_004778.3 + 89554 0.7 0.989316
Target:  5'- aGCGCggcggguauguaaUUGUACUGGuAAAACAAGUcGCg -3'
miRNA:   3'- -UGCG-------------AGCAUGACCuUUUUGUUCAcUG- -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.