miRNA display CGI


Results 1 - 20 of 21 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
18617 5' -57.6 NC_004682.1 + 21169 0.66 0.60531
Target:  5'- -cCGGGAGgcucaggagauCCUCgaccACCUGGUgGCGCUg -3'
miRNA:   3'- gaGCCCUCau---------GGAG----UGGGCCA-UGCGG- -5'
18617 5' -57.6 NC_004682.1 + 20292 0.66 0.596729
Target:  5'- -cCGGGAGaucACCaaggacaGCCCGGagcggaagUACGCCa -3'
miRNA:   3'- gaGCCCUCa--UGGag-----UGGGCC--------AUGCGG- -5'
18617 5' -57.6 NC_004682.1 + 12160 0.66 0.586028
Target:  5'- -cCGGGGGUuCCUCGccauCCCGuaccUGCGCUg -3'
miRNA:   3'- gaGCCCUCAuGGAGU----GGGCc---AUGCGG- -5'
18617 5' -57.6 NC_004682.1 + 22244 0.67 0.564745
Target:  5'- -aCGGGGGgagGCCggaUCGCuCCGGU--GCCa -3'
miRNA:   3'- gaGCCCUCa--UGG---AGUG-GGCCAugCGG- -5'
18617 5' -57.6 NC_004682.1 + 12977 0.67 0.564745
Target:  5'- uCUCGGG-GUACCUCGgCCa----GCCg -3'
miRNA:   3'- -GAGCCCuCAUGGAGUgGGccaugCGG- -5'
18617 5' -57.6 NC_004682.1 + 15067 0.67 0.561569
Target:  5'- -aCGGGAaccuggcgcugGUggacgagcgcuaucACCUC-CCCGGUgagcGCGCCg -3'
miRNA:   3'- gaGCCCU-----------CA--------------UGGAGuGGGCCA----UGCGG- -5'
18617 5' -57.6 NC_004682.1 + 34578 0.67 0.533228
Target:  5'- cCUC-GGAGUACUUcCAUCCGcacaGCGCCa -3'
miRNA:   3'- -GAGcCCUCAUGGA-GUGGGCca--UGCGG- -5'
18617 5' -57.6 NC_004682.1 + 36030 0.67 0.522859
Target:  5'- -cCGGGAcgAUCUgCGCCCGGUAcaucuccgaacCGCCc -3'
miRNA:   3'- gaGCCCUcaUGGA-GUGGGCCAU-----------GCGG- -5'
18617 5' -57.6 NC_004682.1 + 48952 0.67 0.512569
Target:  5'- gUCGauguGGAGUcCCUCGCCCGcaGgGCCu -3'
miRNA:   3'- gAGC----CCUCAuGGAGUGGGCcaUgCGG- -5'
18617 5' -57.6 NC_004682.1 + 41303 0.68 0.500332
Target:  5'- uCUCGGG-GUcgacgcccagcuCCUCGCCCuugACGCCg -3'
miRNA:   3'- -GAGCCCuCAu-----------GGAGUGGGccaUGCGG- -5'
18617 5' -57.6 NC_004682.1 + 3445 0.68 0.452775
Target:  5'- -cCGGcGAu--CCggaCACCUGGUACGCCa -3'
miRNA:   3'- gaGCC-CUcauGGa--GUGGGCCAUGCGG- -5'
18617 5' -57.6 NC_004682.1 + 15135 0.69 0.405977
Target:  5'- aUgGaGGAGUucaagauCCUC-CCCGGUggACGCCa -3'
miRNA:   3'- gAgC-CCUCAu------GGAGuGGGCCA--UGCGG- -5'
18617 5' -57.6 NC_004682.1 + 29870 0.7 0.388127
Target:  5'- cCUCGGG-GUGCUUCuccACCCGcuccCGCCa -3'
miRNA:   3'- -GAGCCCuCAUGGAG---UGGGCcau-GCGG- -5'
18617 5' -57.6 NC_004682.1 + 1815 0.7 0.379398
Target:  5'- --aGGGcGU-CCUCACCCGcGUuCGCCc -3'
miRNA:   3'- gagCCCuCAuGGAGUGGGC-CAuGCGG- -5'
18617 5' -57.6 NC_004682.1 + 32041 0.71 0.337764
Target:  5'- gUCGGu-GUACUUCGCCUGGUAguccaucugcUGCCg -3'
miRNA:   3'- gAGCCcuCAUGGAGUGGGCCAU----------GCGG- -5'
18617 5' -57.6 NC_004682.1 + 48403 0.71 0.30692
Target:  5'- cCUUGGGA---CCUUgcgGCCCGGUGuCGCCu -3'
miRNA:   3'- -GAGCCCUcauGGAG---UGGGCCAU-GCGG- -5'
18617 5' -57.6 NC_004682.1 + 1445 0.71 0.30692
Target:  5'- gCUCGGGAGcgucggACCuUCACCUGGgccaACGUg -3'
miRNA:   3'- -GAGCCCUCa-----UGG-AGUGGGCCa---UGCGg -5'
18617 5' -57.6 NC_004682.1 + 50798 0.72 0.278279
Target:  5'- gUCGGGGGUauGCCaggUACCCcaggggGGUAUGCCc -3'
miRNA:   3'- gAGCCCUCA--UGGa--GUGGG------CCAUGCGG- -5'
18617 5' -57.6 NC_004682.1 + 239 0.73 0.239368
Target:  5'- -gCGGGGuGUACCccUACCCGGUACcCCa -3'
miRNA:   3'- gaGCCCU-CAUGGa-GUGGGCCAUGcGG- -5'
18617 5' -57.6 NC_004682.1 + 44583 0.74 0.212702
Target:  5'- uUCGGGGGUgGCCUCaacguaucgccaaccACCCuGUGCGCUc -3'
miRNA:   3'- gAGCCCUCA-UGGAG---------------UGGGcCAUGCGG- -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.