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
21342 3' -50.9 NC_004778.3 + 108356 1.07 0.009242
Target:  5'- aAUUCAAACGUGGCAAGCUACGCCACGc -3'
miRNA:   3'- -UAAGUUUGCACCGUUCGAUGCGGUGC- -5'
21342 3' -50.9 NC_004778.3 + 27693 0.68 0.958591
Target:  5'- --aCGAGCGUGGCcAGU---GCCGCGu -3'
miRNA:   3'- uaaGUUUGCACCGuUCGaugCGGUGC- -5'
21342 3' -50.9 NC_004778.3 + 12999 0.67 0.965873
Target:  5'- uUUCAcGCG-GGCAGGUUugagGCGCUGCa -3'
miRNA:   3'- uAAGUuUGCaCCGUUCGA----UGCGGUGc -5'
21342 3' -50.9 NC_004778.3 + 1619 0.67 0.969154
Target:  5'- cUUCAAacacACGUuGCGcuuGCUGCGCUGCGg -3'
miRNA:   3'- uAAGUU----UGCAcCGUu--CGAUGCGGUGC- -5'
21342 3' -50.9 NC_004778.3 + 129291 0.67 0.972203
Target:  5'- --aCAAAUGcUGGC--GCUguACGCCGCGg -3'
miRNA:   3'- uaaGUUUGC-ACCGuuCGA--UGCGGUGC- -5'
21342 3' -50.9 NC_004778.3 + 38137 0.66 0.977639
Target:  5'- -gUgAAGCGcaGGCccGCUGCGCCGCu -3'
miRNA:   3'- uaAgUUUGCa-CCGuuCGAUGCGGUGc -5'
21342 3' -50.9 NC_004778.3 + 118777 0.66 0.982248
Target:  5'- cUUCGGGCGcGGCGcGGCcgGCGCgCACa -3'
miRNA:   3'- uAAGUUUGCaCCGU-UCGa-UGCG-GUGc -5'
21342 3' -50.9 NC_004778.3 + 95021 0.66 0.984265
Target:  5'- ----cGACG-GGCAGG-UGCGCCugGa -3'
miRNA:   3'- uaaguUUGCaCCGUUCgAUGCGGugC- -5'
21342 3' -50.9 NC_004778.3 + 100873 0.66 0.987773
Target:  5'- --gCGGAU-UGGCcAGCUugGCCGCc -3'
miRNA:   3'- uaaGUUUGcACCGuUCGAugCGGUGc -5'
21342 3' -50.9 NC_004778.3 + 29324 0.68 0.94578
Target:  5'- cUUCGAAgGUGGCGcggcgcgcgcugGGgUGCGCCaaGCGg -3'
miRNA:   3'- uAAGUUUgCACCGU------------UCgAUGCGG--UGC- -5'
21342 3' -50.9 NC_004778.3 + 32488 0.68 0.942937
Target:  5'- --gCGGuCGUGGCAcgcgagcuugaacauGGCUGCGUCAUGc -3'
miRNA:   3'- uaaGUUuGCACCGU---------------UCGAUGCGGUGC- -5'
21342 3' -50.9 NC_004778.3 + 11985 0.78 0.466971
Target:  5'- -aUCGucAACGUGGCAGGCcGCuGCCGCGc -3'
miRNA:   3'- uaAGU--UUGCACCGUUCGaUG-CGGUGC- -5'
21342 3' -50.9 NC_004778.3 + 108725 0.78 0.4971
Target:  5'- -----uACGUGGCAGcGCUGCGUCGCGg -3'
miRNA:   3'- uaaguuUGCACCGUU-CGAUGCGGUGC- -5'
21342 3' -50.9 NC_004778.3 + 38556 0.73 0.741848
Target:  5'- -gUCGAACGUGGCGuacgacAG-UAUGCCGCGc -3'
miRNA:   3'- uaAGUUUGCACCGU------UCgAUGCGGUGC- -5'
21342 3' -50.9 NC_004778.3 + 15052 0.72 0.791809
Target:  5'- uGUUUGAACGUguaGGCGcGCUcCGCCACGu -3'
miRNA:   3'- -UAAGUUUGCA---CCGUuCGAuGCGGUGC- -5'
21342 3' -50.9 NC_004778.3 + 113877 0.7 0.893052
Target:  5'- aAUUCAAaauggccgggcGCGUcgGGCGaaGGCgGCGCCGCGg -3'
miRNA:   3'- -UAAGUU-----------UGCA--CCGU--UCGaUGCGGUGC- -5'
21342 3' -50.9 NC_004778.3 + 90551 0.7 0.899971
Target:  5'- -gUCGGAUaGUGGCAGcGCU-CGCCGCc -3'
miRNA:   3'- uaAGUUUG-CACCGUU-CGAuGCGGUGc -5'
21342 3' -50.9 NC_004778.3 + 64801 0.69 0.919154
Target:  5'- uGUUCGGGCGacGCGcGCUGCGCCGa- -3'
miRNA:   3'- -UAAGUUUGCacCGUuCGAUGCGGUgc -5'
21342 3' -50.9 NC_004778.3 + 95227 0.69 0.925015
Target:  5'- uGUUCAAccaaaucgccGCGgacucgGGCAuGgUGCGCCGCGg -3'
miRNA:   3'- -UAAGUU----------UGCa-----CCGUuCgAUGCGGUGC- -5'
21342 3' -50.9 NC_004778.3 + 100448 0.73 0.762232
Target:  5'- --aCAGGCGUGGCGGGCUAUG--ACGg -3'
miRNA:   3'- uaaGUUUGCACCGUUCGAUGCggUGC- -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.