miRNA display CGI


Results 1 - 20 of 42 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
18479 3' -61.3 NC_004681.1 + 24945 0.78 0.082401
Target:  5'- uUGGcGGCCGCCG-CCCGCGCcGCCGa -3'
miRNA:   3'- gACCuCUGGUGGUaGGGCGCG-CGGCa -5'
18479 3' -61.3 NC_004681.1 + 56451 0.67 0.459352
Target:  5'- uUGGGGuCCACCcgCUUgaagGCGCGCUGc -3'
miRNA:   3'- gACCUCuGGUGGuaGGG----CGCGCGGCa -5'
18479 3' -61.3 NC_004681.1 + 51192 0.67 0.422817
Target:  5'- -gGGAGGCCGUCGUCuuGgGCGCUc- -3'
miRNA:   3'- gaCCUCUGGUGGUAGggCgCGCGGca -5'
18479 3' -61.3 NC_004681.1 + 1543 0.67 0.422817
Target:  5'- -gGGGGACUugaugacCCcgCCCGCGgCGCCa- -3'
miRNA:   3'- gaCCUCUGGu------GGuaGGGCGC-GCGGca -5'
18479 3' -61.3 NC_004681.1 + 70523 0.69 0.347386
Target:  5'- -cGGAGACgaugacaGCUGUCgCGCGCGCgCGUg -3'
miRNA:   3'- gaCCUCUGg------UGGUAGgGCGCGCG-GCA- -5'
18479 3' -61.3 NC_004681.1 + 68627 0.7 0.295702
Target:  5'- -gGGAGaACCACCGgcauggcgCCCagGCGUGCCGc -3'
miRNA:   3'- gaCCUC-UGGUGGUa-------GGG--CGCGCGGCa -5'
18479 3' -61.3 NC_004681.1 + 21227 0.66 0.50726
Target:  5'- gUGGGGACCACCAcaaUGgGCGUCa- -3'
miRNA:   3'- gACCUCUGGUGGUaggGCgCGCGGca -5'
18479 3' -61.3 NC_004681.1 + 16239 0.67 0.450059
Target:  5'- -gGGAuGGCCGCCAgCgCCGCGaaGCCGa -3'
miRNA:   3'- gaCCU-CUGGUGGUaG-GGCGCg-CGGCa -5'
18479 3' -61.3 NC_004681.1 + 25171 0.67 0.422817
Target:  5'- -aGGAGGCUgagcgagguGCCG-CCCGCGcCGCCc- -3'
miRNA:   3'- gaCCUCUGG---------UGGUaGGGCGC-GCGGca -5'
18479 3' -61.3 NC_004681.1 + 49400 0.7 0.268954
Target:  5'- gUGcAGACCGCCcgCCuUGCGCGCCu- -3'
miRNA:   3'- gACcUCUGGUGGuaGG-GCGCGCGGca -5'
18479 3' -61.3 NC_004681.1 + 62175 0.77 0.099398
Target:  5'- aUGGAGGCCGCCAUgCCGCGCacaGUCa- -3'
miRNA:   3'- gACCUCUGGUGGUAgGGCGCG---CGGca -5'
18479 3' -61.3 NC_004681.1 + 52656 0.72 0.205442
Target:  5'- -aGGGGACCACuCGUCCgCGauaGCGUCGa -3'
miRNA:   3'- gaCCUCUGGUG-GUAGG-GCg--CGCGGCa -5'
18479 3' -61.3 NC_004681.1 + 18320 0.67 0.449135
Target:  5'- -cGGAGuCUGCCcgCCCgguacacccggggGUGCGCCGg -3'
miRNA:   3'- gaCCUCuGGUGGuaGGG-------------CGCGCGGCa -5'
18479 3' -61.3 NC_004681.1 + 2913 0.75 0.12746
Target:  5'- cCUGGGGGCCuggcugggcgacggcACCG-CCaCGCGCGCCGa -3'
miRNA:   3'- -GACCUCUGG---------------UGGUaGG-GCGCGCGGCa -5'
18479 3' -61.3 NC_004681.1 + 57788 0.72 0.215937
Target:  5'- -cGGAGACCgcgACCAcgCgCCGCGCcGCCGa -3'
miRNA:   3'- gaCCUCUGG---UGGUa-G-GGCGCG-CGGCa -5'
18479 3' -61.3 NC_004681.1 + 16146 0.67 0.422817
Target:  5'- -cGGcgcuGGCgGCCAUCCCGUcgcucaucGCGCUGUc -3'
miRNA:   3'- gaCCu---CUGgUGGUAGGGCG--------CGCGGCA- -5'
18479 3' -61.3 NC_004681.1 + 38213 0.68 0.396589
Target:  5'- aUGGGGcgGCCGaagaCGUCCCGCggcgGCGCCa- -3'
miRNA:   3'- gACCUC--UGGUg---GUAGGGCG----CGCGGca -5'
18479 3' -61.3 NC_004681.1 + 52857 0.68 0.363292
Target:  5'- -cGGAaggcuGGCCAUCGgccugCCCGCGUGCCc- -3'
miRNA:   3'- gaCCU-----CUGGUGGUa----GGGCGCGCGGca -5'
18479 3' -61.3 NC_004681.1 + 37659 0.68 0.363292
Target:  5'- uCUGcGGGGCCucGCCAgcggCCGCGCGUCGc -3'
miRNA:   3'- -GAC-CUCUGG--UGGUag--GGCGCGCGGCa -5'
18479 3' -61.3 NC_004681.1 + 6559 0.71 0.2502
Target:  5'- -aGGAGucgUCACCGaagcaCCUGCGCGCCGUc -3'
miRNA:   3'- gaCCUCu--GGUGGUa----GGGCGCGCGGCA- -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.