miRNA display CGI


Results 1 - 20 of 32 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
28523 3' -61.7 NC_005946.1 + 50068 0.66 0.549837
Target:  5'- --uGCUCCA-GCCUCauggUCAGGGCCUu -3'
miRNA:   3'- cacCGGGGUcCGGAGga--AGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 82029 0.66 0.539961
Target:  5'- ---cUUCCAGuaGCCUCCgggCGGGACCCu -3'
miRNA:   3'- caccGGGGUC--CGGAGGaa-GUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 1537 0.66 0.539961
Target:  5'- -cGGCCCUcaGGGCCaccaucUCCU-CGGGAgCUu -3'
miRNA:   3'- caCCGGGG--UCCGG------AGGAaGUCCUgGG- -5'
28523 3' -61.7 NC_005946.1 + 70085 0.66 0.534064
Target:  5'- -gGGUCCCAcuacGGCCaggugccCCUUCcucccgucucccuugAGGACCCu -3'
miRNA:   3'- caCCGGGGU----CCGGa------GGAAG---------------UCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 36106 0.66 0.530145
Target:  5'- -cGGCCUU-GGCCUUUUcCAGGuCCCu -3'
miRNA:   3'- caCCGGGGuCCGGAGGAaGUCCuGGG- -5'
28523 3' -61.7 NC_005946.1 + 78439 0.66 0.520395
Target:  5'- --uGCCUCAugagGaGCCUCCUgaGGGGCCCg -3'
miRNA:   3'- cacCGGGGU----C-CGGAGGAagUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 59657 0.67 0.510716
Target:  5'- uUGGCCUCuGGUUggaCUUUUAGGGCCg -3'
miRNA:   3'- cACCGGGGuCCGGa--GGAAGUCCUGGg -5'
28523 3' -61.7 NC_005946.1 + 26385 0.67 0.500157
Target:  5'- -cGGCCCgGGGCgUuguagugCCUggAGGGCCUg -3'
miRNA:   3'- caCCGGGgUCCGgA-------GGAagUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 22804 0.67 0.500157
Target:  5'- -aGGCCCCAcacccccGGCCacgCCggguUCAgGGACCa -3'
miRNA:   3'- caCCGGGGU-------CCGGa--GGa---AGU-CCUGGg -5'
28523 3' -61.7 NC_005946.1 + 71042 0.67 0.481212
Target:  5'- -aGGUCCCuGGCCagCCUgaaggCGGGAgcgugacCCCa -3'
miRNA:   3'- caCCGGGGuCCGGa-GGAa----GUCCU-------GGG- -5'
28523 3' -61.7 NC_005946.1 + 28361 0.67 0.472802
Target:  5'- -gGGCUagCCAGGucCCUCC-UUAGGGCCg -3'
miRNA:   3'- caCCGG--GGUCC--GGAGGaAGUCCUGGg -5'
28523 3' -61.7 NC_005946.1 + 82952 0.68 0.454382
Target:  5'- uUGGCCCgucaCAGGgUUCCUggUGGGAUCCc -3'
miRNA:   3'- cACCGGG----GUCCgGAGGAa-GUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 11005 0.68 0.454382
Target:  5'- -aGaGCCCCGGacugucCCUCUccCAGGACCCc -3'
miRNA:   3'- caC-CGGGGUCc-----GGAGGaaGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 44447 0.68 0.44532
Target:  5'- cUGGCCgaCAGGaugCUCC-UCAGG-CCCg -3'
miRNA:   3'- cACCGGg-GUCCg--GAGGaAGUCCuGGG- -5'
28523 3' -61.7 NC_005946.1 + 63602 0.68 0.410115
Target:  5'- cUGaCCCCugGGGCCcuuuggaCCcUCAGGACCCg -3'
miRNA:   3'- cACcGGGG--UCCGGa------GGaAGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 93897 0.69 0.401588
Target:  5'- -aGGCCUgCAGGCggUUCCUguuuuGGACCCa -3'
miRNA:   3'- caCCGGG-GUCCG--GAGGAagu--CCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 70375 0.69 0.393174
Target:  5'- -aGGCCCUcgAGuCCUCCagcCAGGACCUc -3'
miRNA:   3'- caCCGGGG--UCcGGAGGaa-GUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 83659 0.69 0.360686
Target:  5'- -cGGUCCUAGGgUUCCUggUGGGAUCCc -3'
miRNA:   3'- caCCGGGGUCCgGAGGAa-GUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 83449 0.69 0.360686
Target:  5'- -cGGUCCUAGGgUUCCUggUGGGAUCCc -3'
miRNA:   3'- caCCGGGGUCCgGAGGAa-GUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 69905 0.7 0.337576
Target:  5'- aGUGGCCuCCAgGGCCUCggcguccaugUCAGGccucuuuacGCCCg -3'
miRNA:   3'- -CACCGG-GGU-CCGGAGga--------AGUCC---------UGGG- -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.