miRNA display CGI


Results 1 - 12 of 12 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
1383 3' -61.5 NC_001335.1 + 2317 0.66 0.361803
Target:  5'- aGGUcGGCaagGAGUgaGCUGGGCCGGcuCa -3'
miRNA:   3'- -UCGaCCGg--CUCAa-CGGCCCGGCCuuG- -5'
1383 3' -61.5 NC_001335.1 + 47011 0.67 0.329535
Target:  5'- aAGCUgcugcgccaGGCCGAagacGUgGCCGGuacGCCGGAAg -3'
miRNA:   3'- -UCGA---------CCGGCU----CAaCGGCC---CGGCCUUg -5'
1383 3' -61.5 NC_001335.1 + 27900 0.68 0.285209
Target:  5'- uGCaGuCCGuuGUUGCUGGGCUGGAAUc -3'
miRNA:   3'- uCGaCcGGCu-CAACGGCCCGGCCUUG- -5'
1383 3' -61.5 NC_001335.1 + 40953 0.68 0.278296
Target:  5'- cGGCUugucGCCGucGUUGUgCGGGCCGGuGACg -3'
miRNA:   3'- -UCGAc---CGGCu-CAACG-GCCCGGCC-UUG- -5'
1383 3' -61.5 NC_001335.1 + 32892 0.68 0.271517
Target:  5'- gAGCcggGGCCGGcucggGCUGGGCaGGGGCg -3'
miRNA:   3'- -UCGa--CCGGCUcaa--CGGCCCGgCCUUG- -5'
1383 3' -61.5 NC_001335.1 + 39682 0.68 0.269509
Target:  5'- gGGCUGGCauccuccgcaacauCGAGaugGUCaGGGCCGGuGCg -3'
miRNA:   3'- -UCGACCG--------------GCUCaa-CGG-CCCGGCCuUG- -5'
1383 3' -61.5 NC_001335.1 + 16458 0.69 0.227741
Target:  5'- cAGCaucgGGCCGAGcUGCUGGaacaCCGGggUg -3'
miRNA:   3'- -UCGa---CCGGCUCaACGGCCc---GGCCuuG- -5'
1383 3' -61.5 NC_001335.1 + 5692 0.69 0.227741
Target:  5'- cGCUGGCUGcGUacggugccUGCCGcuacGGCCGGcGCa -3'
miRNA:   3'- uCGACCGGCuCA--------ACGGC----CCGGCCuUG- -5'
1383 3' -61.5 NC_001335.1 + 17224 0.69 0.221999
Target:  5'- -cCUGGCCGAGggccgucGCCaGcGCCGGGAUg -3'
miRNA:   3'- ucGACCGGCUCaa-----CGGcC-CGGCCUUG- -5'
1383 3' -61.5 NC_001335.1 + 34415 0.69 0.21638
Target:  5'- cGCUGGuaGuGgaccgUGCCGGGUCGGuaguGCg -3'
miRNA:   3'- uCGACCggCuCa----ACGGCCCGGCCu---UG- -5'
1383 3' -61.5 NC_001335.1 + 45255 0.7 0.200251
Target:  5'- cAGgUGGUCGAGUUcgaGCUggcaaGGGCCGGAu- -3'
miRNA:   3'- -UCgACCGGCUCAA---CGG-----CCCGGCCUug -5'
1383 3' -61.5 NC_001335.1 + 32232 0.91 0.005082
Target:  5'- gAGCUGGCCGAGUU-CgCGGGCCGGAACu -3'
miRNA:   3'- -UCGACCGGCUCAAcG-GCCCGGCCUUG- -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.