miRNA display CGI


Results 1 - 18 of 18 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
31648 3' -52.8 NC_006879.1 + 9203 0.66 0.716633
Target:  5'- --uGGGCCGCUgggggGCGUCC-GCGgGCa -3'
miRNA:   3'- cuuUUUGGUGGa----CGUAGGuCGCgCGg -5'
31648 3' -52.8 NC_006879.1 + 30716 0.66 0.705237
Target:  5'- -uGAGGCCgcgGCCUGUGUUaaCAGUgaGCGCCu -3'
miRNA:   3'- cuUUUUGG---UGGACGUAG--GUCG--CGCGG- -5'
31648 3' -52.8 NC_006879.1 + 16539 0.66 0.693761
Target:  5'- --cGAGCUGCUUGCAaggCCacugaAGCGaCGCCg -3'
miRNA:   3'- cuuUUUGGUGGACGUa--GG-----UCGC-GCGG- -5'
31648 3' -52.8 NC_006879.1 + 19399 0.66 0.682218
Target:  5'- -----cCCGCCaacGCcaCCAGCGUGCCc -3'
miRNA:   3'- cuuuuuGGUGGa--CGuaGGUCGCGCGG- -5'
31648 3' -52.8 NC_006879.1 + 23540 0.66 0.682218
Target:  5'- --cAGACCGCCauggGCGUCUGGCagcaGUGCUu -3'
miRNA:   3'- cuuUUUGGUGGa---CGUAGGUCG----CGCGG- -5'
31648 3' -52.8 NC_006879.1 + 15621 0.67 0.658982
Target:  5'- --uGAGCCGCCUGUuccaauauGUCCu-CGuCGCCg -3'
miRNA:   3'- cuuUUUGGUGGACG--------UAGGucGC-GCGG- -5'
31648 3' -52.8 NC_006879.1 + 25108 0.67 0.658982
Target:  5'- aGAAGACCAgCUGCAgcgcaccCUGGaCGaCGCCg -3'
miRNA:   3'- cUUUUUGGUgGACGUa------GGUC-GC-GCGG- -5'
31648 3' -52.8 NC_006879.1 + 9832 0.67 0.647316
Target:  5'- --uGGACgACCUGUcccCCGGCGCccccGCCa -3'
miRNA:   3'- cuuUUUGgUGGACGua-GGUCGCG----CGG- -5'
31648 3' -52.8 NC_006879.1 + 21267 0.67 0.612272
Target:  5'- ---cAACC-CCgGCGugcugguguUCCAGUGUGCCa -3'
miRNA:   3'- cuuuUUGGuGGaCGU---------AGGUCGCGCGG- -5'
31648 3' -52.8 NC_006879.1 + 15021 0.67 0.612272
Target:  5'- ----cGCCGCgCUGCcgCCAaCGcCGCCg -3'
miRNA:   3'- cuuuuUGGUG-GACGuaGGUcGC-GCGG- -5'
31648 3' -52.8 NC_006879.1 + 8995 0.68 0.588986
Target:  5'- -cGAGACCAUgcGUcgCCGGCGCGgCg -3'
miRNA:   3'- cuUUUUGGUGgaCGuaGGUCGCGCgG- -5'
31648 3' -52.8 NC_006879.1 + 5157 0.68 0.565864
Target:  5'- -cGAGACCGUCUGCGcUCAGUGCggaGCCg -3'
miRNA:   3'- cuUUUUGGUGGACGUaGGUCGCG---CGG- -5'
31648 3' -52.8 NC_006879.1 + 4967 0.68 0.554389
Target:  5'- uGAGGGACUcgGCCgcGUGUCCcuGGCGCGCa -3'
miRNA:   3'- -CUUUUUGG--UGGa-CGUAGG--UCGCGCGg -5'
31648 3' -52.8 NC_006879.1 + 23588 0.68 0.542983
Target:  5'- aAAGAGCUAgacaaacuccUCUGCcgCCagcGGCGCGCCc -3'
miRNA:   3'- cUUUUUGGU----------GGACGuaGG---UCGCGCGG- -5'
31648 3' -52.8 NC_006879.1 + 30235 0.69 0.509268
Target:  5'- gGAcAAACUAgcCCUGCAaaCAGCcGCGCCc -3'
miRNA:   3'- -CUuUUUGGU--GGACGUagGUCG-CGCGG- -5'
31648 3' -52.8 NC_006879.1 + 16953 0.69 0.504838
Target:  5'- gGAAAAGCUGCCccGCuggagaaaguucCCGGUGCGCCu -3'
miRNA:   3'- -CUUUUUGGUGGa-CGua----------GGUCGCGCGG- -5'
31648 3' -52.8 NC_006879.1 + 11191 0.75 0.220835
Target:  5'- uGGGAGCCgAUCUGCAguggcgucCCAGCGCGCg -3'
miRNA:   3'- cUUUUUGG-UGGACGUa-------GGUCGCGCGg -5'
31648 3' -52.8 NC_006879.1 + 24562 1.12 0.000509
Target:  5'- aGAAAAACCACCUGCAUCCAGCGCGCCu -3'
miRNA:   3'- -CUUUUUGGUGGACGUAGGUCGCGCGG- -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.