miRNA display CGI


Results 1 - 20 of 58 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
11479 3' -59.1 NC_003085.1 + 2836 0.66 0.493615
Target:  5'- cGUCUGCCCggCAgC-CGGGCGaGgaggGCu -3'
miRNA:   3'- aCGGACGGGuaGUgGaGCCUGC-Ca---CG- -5'
11479 3' -59.1 NC_003085.1 + 24106 0.69 0.306974
Target:  5'- gGCgUGCCCGUCACCgucCGGAa-GcGCg -3'
miRNA:   3'- aCGgACGGGUAGUGGa--GCCUgcCaCG- -5'
11479 3' -59.1 NC_003085.1 + 27406 0.71 0.245224
Target:  5'- gGCCuUGUCCAacaCGCCUUcGAUGGUGCu -3'
miRNA:   3'- aCGG-ACGGGUa--GUGGAGcCUGCCACG- -5'
11479 3' -59.1 NC_003085.1 + 16045 1.1 0.000304
Target:  5'- cUGCCUGCCCAUCACCUCGGACGGUGCc -3'
miRNA:   3'- -ACGGACGGGUAGUGGAGCCUGCCACG- -5'
11479 3' -59.1 NC_003085.1 + 28411 0.66 0.473523
Target:  5'- gGCUUGCCCA-C-CUUCGGgACGGaagcccagagauUGCg -3'
miRNA:   3'- aCGGACGGGUaGuGGAGCC-UGCC------------ACG- -5'
11479 3' -59.1 NC_003085.1 + 46200 0.66 0.463632
Target:  5'- gGCUccaUGCCCGcUCAUggCGGGCGaGUGUg -3'
miRNA:   3'- aCGG---ACGGGU-AGUGgaGCCUGC-CACG- -5'
11479 3' -59.1 NC_003085.1 + 8658 0.67 0.406708
Target:  5'- gGCCgggacGCgCGUgGCCUUGGGCgccggGGUGCc -3'
miRNA:   3'- aCGGa----CGgGUAgUGGAGCCUG-----CCACG- -5'
11479 3' -59.1 NC_003085.1 + 31056 0.67 0.397653
Target:  5'- gGCCaGUCgCuUCGCCUCGG--GGUGCg -3'
miRNA:   3'- aCGGaCGG-GuAGUGGAGCCugCCACG- -5'
11479 3' -59.1 NC_003085.1 + 6537 0.68 0.37128
Target:  5'- cGCCgUGgCCAUCAUC-CGGucaACGGUGg -3'
miRNA:   3'- aCGG-ACgGGUAGUGGaGCC---UGCCACg -5'
11479 3' -59.1 NC_003085.1 + 26653 0.69 0.314525
Target:  5'- aGUCggGgCCGUCGCCUCcuGGGCGGgaGCg -3'
miRNA:   3'- aCGGa-CgGGUAGUGGAG--CCUGCCa-CG- -5'
11479 3' -59.1 NC_003085.1 + 37876 0.69 0.336411
Target:  5'- cGcCCUGCCCcguUCcaGCCaggcgcgggcaGGACGGUGCg -3'
miRNA:   3'- aC-GGACGGGu--AG--UGGag---------CCUGCCACG- -5'
11479 3' -59.1 NC_003085.1 + 5709 0.68 0.388729
Target:  5'- aGCCcgcGCCCAcCACCggggCGGACccggcucgGGUGUc -3'
miRNA:   3'- aCGGa--CGGGUaGUGGa---GCCUG--------CCACG- -5'
11479 3' -59.1 NC_003085.1 + 25826 0.66 0.483519
Target:  5'- gGCCUGCUCGcgcugcugaagCACCuUCGaGACuuccgGGUGCa -3'
miRNA:   3'- aCGGACGGGUa----------GUGG-AGC-CUG-----CCACG- -5'
11479 3' -59.1 NC_003085.1 + 37130 0.69 0.314525
Target:  5'- cGCgUGCCC-UUGCCcagguUCGGGuCGGUGUg -3'
miRNA:   3'- aCGgACGGGuAGUGG-----AGCCU-GCCACG- -5'
11479 3' -59.1 NC_003085.1 + 32539 0.66 0.473523
Target:  5'- gGCCuUGCCCu---CCaCGGGCGGggGCu -3'
miRNA:   3'- aCGG-ACGGGuaguGGaGCCUGCCa-CG- -5'
11479 3' -59.1 NC_003085.1 + 33084 0.68 0.388729
Target:  5'- cUGCCaacuuUGCCCG-CGCCU-GGAaugccuCGGUGCc -3'
miRNA:   3'- -ACGG-----ACGGGUaGUGGAgCCU------GCCACG- -5'
11479 3' -59.1 NC_003085.1 + 40556 0.69 0.306974
Target:  5'- cGUCgagGCgCAagGCCUUGGugGCGGUGCg -3'
miRNA:   3'- aCGGa--CGgGUagUGGAGCC--UGCCACG- -5'
11479 3' -59.1 NC_003085.1 + 48519 0.7 0.278159
Target:  5'- gGCCUGUCUggCACC-CGGACGcG-GCc -3'
miRNA:   3'- aCGGACGGGuaGUGGaGCCUGC-CaCG- -5'
11479 3' -59.1 NC_003085.1 + 20132 0.66 0.473523
Target:  5'- gGCCUGCCCcg-----CGG-CGGUGCc -3'
miRNA:   3'- aCGGACGGGuaguggaGCCuGCCACG- -5'
11479 3' -59.1 NC_003085.1 + 16900 0.67 0.41589
Target:  5'- cGCCUccgccaacucGCUCAugUCGCUgagcuuguUCGcGACGGUGCg -3'
miRNA:   3'- aCGGA----------CGGGU--AGUGG--------AGC-CUGCCACG- -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.