miRNA display CGI


Results 1 - 16 of 16 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
21909 5' -52.5 NC_004913.1 + 18763 0.66 0.875957
Target:  5'- --aUGCGGuugugaaccaGUCGCAgcauaauauucaUCCACCGCAgCCu -3'
miRNA:   3'- cugACGCC----------UAGUGU------------AGGUGGUGUaGG- -5'
21909 5' -52.5 NC_004913.1 + 25424 0.66 0.867976
Target:  5'- cGAUgGCGGAUCAgCgAUUCGCuCAgGUCCu -3'
miRNA:   3'- -CUGaCGCCUAGU-G-UAGGUG-GUgUAGG- -5'
21909 5' -52.5 NC_004913.1 + 14990 0.66 0.854683
Target:  5'- -cCUGUGGAuuuuuauccuugccuUCAUAUCCACUACccgaCCa -3'
miRNA:   3'- cuGACGCCU---------------AGUGUAGGUGGUGua--GG- -5'
21909 5' -52.5 NC_004913.1 + 19990 0.66 0.851263
Target:  5'- uGCUGCGGGUCGgCGUCaauggACaaaaACGUCUg -3'
miRNA:   3'- cUGACGCCUAGU-GUAGg----UGg---UGUAGG- -5'
21909 5' -52.5 NC_004913.1 + 32481 0.67 0.842548
Target:  5'- --gUGCGGcaauuucaccguGUCGCAUCCcuguaaaaacaGCCACuGUCCa -3'
miRNA:   3'- cugACGCC------------UAGUGUAGG-----------UGGUG-UAGG- -5'
21909 5' -52.5 NC_004913.1 + 21554 0.67 0.815079
Target:  5'- --gUGCuG-UCGCGUUCugCGCAUCCg -3'
miRNA:   3'- cugACGcCuAGUGUAGGugGUGUAGG- -5'
21909 5' -52.5 NC_004913.1 + 13656 0.68 0.795762
Target:  5'- cAUUGCGGAUCACcaGUCC--UACAUUCu -3'
miRNA:   3'- cUGACGCCUAGUG--UAGGugGUGUAGG- -5'
21909 5' -52.5 NC_004913.1 + 24481 0.68 0.79379
Target:  5'- cGCUGacaccacCGGAUCACcauuuuuAUCCACgGCAUCa -3'
miRNA:   3'- cUGAC-------GCCUAGUG-------UAGGUGgUGUAGg -5'
21909 5' -52.5 NC_004913.1 + 20389 0.69 0.733966
Target:  5'- -uCUGCGGccUgACGUCUGCCACGauaUCCg -3'
miRNA:   3'- cuGACGCCu-AgUGUAGGUGGUGU---AGG- -5'
21909 5' -52.5 NC_004913.1 + 46702 0.69 0.723229
Target:  5'- gGACUGCGGuuccUCGCGUUCACgucggCGCAUUUc -3'
miRNA:   3'- -CUGACGCCu---AGUGUAGGUG-----GUGUAGG- -5'
21909 5' -52.5 NC_004913.1 + 21414 0.7 0.634966
Target:  5'- -gUUGUGGuaaaACGaCCACCACGUCCg -3'
miRNA:   3'- cuGACGCCuag-UGUaGGUGGUGUAGG- -5'
21909 5' -52.5 NC_004913.1 + 53506 0.72 0.524824
Target:  5'- ---gGCGGcUCAUGUCCugCACAUCa -3'
miRNA:   3'- cugaCGCCuAGUGUAGGugGUGUAGg -5'
21909 5' -52.5 NC_004913.1 + 5009 0.73 0.503548
Target:  5'- cGCUGCuGAcucaUACGUCCGCCuGCAUCCa -3'
miRNA:   3'- cUGACGcCUa---GUGUAGGUGG-UGUAGG- -5'
21909 5' -52.5 NC_004913.1 + 57648 0.73 0.503548
Target:  5'- -cCUGCGGAUCAacgCCACCuGC-UCCg -3'
miRNA:   3'- cuGACGCCUAGUguaGGUGG-UGuAGG- -5'
21909 5' -52.5 NC_004913.1 + 20564 0.73 0.46219
Target:  5'- aGCUGCGGAugcgUCACccUCUguuGCCAUAUCCg -3'
miRNA:   3'- cUGACGCCU----AGUGu-AGG---UGGUGUAGG- -5'
21909 5' -52.5 NC_004913.1 + 11068 1.13 0.001162
Target:  5'- gGACUGCGGAUCACAUCCACCACAUCCg -3'
miRNA:   3'- -CUGACGCCUAGUGUAGGUGGUGUAGG- -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.