miRNA display CGI


Results 1 - 20 of 23 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
30561 3' -61.6 NC_006548.1 + 25819 0.66 0.312125
Target:  5'- gGGCCuuggcUGGGCuGGCACUGGguUGCCuguUCg- -3'
miRNA:   3'- -CCGG-----ACCCG-CCGUGGCU--GCGGu--AGau -5'
30561 3' -61.6 NC_006548.1 + 17430 0.66 0.304564
Target:  5'- cGGCCUGGGUGGacucaacuUCGACcCCAUa-- -3'
miRNA:   3'- -CCGGACCCGCCgu------GGCUGcGGUAgau -5'
30561 3' -61.6 NC_006548.1 + 33954 0.66 0.304564
Target:  5'- uGGCCUGGcCGGuCAU--GCGCCGUCc- -3'
miRNA:   3'- -CCGGACCcGCC-GUGgcUGCGGUAGau -5'
30561 3' -61.6 NC_006548.1 + 15804 0.66 0.297145
Target:  5'- cGGCCUGGGUaucggcugGGCGgaCGACGCuCAg--- -3'
miRNA:   3'- -CCGGACCCG--------CCGUg-GCUGCG-GUagau -5'
30561 3' -61.6 NC_006548.1 + 37787 0.66 0.297145
Target:  5'- -cCCUGGcaucugcaaucuGCGGCuggCGAUGCCGUCUGg -3'
miRNA:   3'- ccGGACC------------CGCCGug-GCUGCGGUAGAU- -5'
30561 3' -61.6 NC_006548.1 + 24914 0.66 0.289867
Target:  5'- cGGCucCUGGGUcucGGUGuuGAUGCCGUCc- -3'
miRNA:   3'- -CCG--GACCCG---CCGUggCUGCGGUAGau -5'
30561 3' -61.6 NC_006548.1 + 8347 0.66 0.282729
Target:  5'- gGGCCUGGGCuaucuGCagcauGCUGACGCUGUg-- -3'
miRNA:   3'- -CCGGACCCGc----CG-----UGGCUGCGGUAgau -5'
30561 3' -61.6 NC_006548.1 + 13367 0.66 0.282729
Target:  5'- -uCCUGcGGCGGgcaaACCGGCGCCGa--- -3'
miRNA:   3'- ccGGAC-CCGCCg---UGGCUGCGGUagau -5'
30561 3' -61.6 NC_006548.1 + 5056 0.66 0.275732
Target:  5'- cGGCgCaGGGUGGauuUACCGGCGCCGg--- -3'
miRNA:   3'- -CCG-GaCCCGCC---GUGGCUGCGGUagau -5'
30561 3' -61.6 NC_006548.1 + 12588 0.66 0.275732
Target:  5'- aGGCCagcUGGuCGGCGCCGgAUGCCGa--- -3'
miRNA:   3'- -CCGG---ACCcGCCGUGGC-UGCGGUagau -5'
30561 3' -61.6 NC_006548.1 + 17521 0.66 0.275732
Target:  5'- cGCUUcGGCcaGCugCGGCGCCAUCg- -3'
miRNA:   3'- cCGGAcCCGc-CGugGCUGCGGUAGau -5'
30561 3' -61.6 NC_006548.1 + 32402 0.67 0.262153
Target:  5'- aGCCUGGcCGGCcaGCCGucgcCGCCGUUg- -3'
miRNA:   3'- cCGGACCcGCCG--UGGCu---GCGGUAGau -5'
30561 3' -61.6 NC_006548.1 + 7307 0.67 0.25557
Target:  5'- cGGUCagGGGCaGCGCaCGGCGCUAUg-- -3'
miRNA:   3'- -CCGGa-CCCGcCGUG-GCUGCGGUAgau -5'
30561 3' -61.6 NC_006548.1 + 21806 0.67 0.236633
Target:  5'- cGCCU--GCGGCACCGGCG-CGUCc- -3'
miRNA:   3'- cCGGAccCGCCGUGGCUGCgGUAGau -5'
30561 3' -61.6 NC_006548.1 + 21207 0.68 0.230587
Target:  5'- cGGC--GGGCGGCGauGGCGCCG-CUGg -3'
miRNA:   3'- -CCGgaCCCGCCGUggCUGCGGUaGAU- -5'
30561 3' -61.6 NC_006548.1 + 34382 0.68 0.197004
Target:  5'- uGGUCcuugUGGGCGGCACCu-CGCUGUUg- -3'
miRNA:   3'- -CCGG----ACCCGCCGUGGcuGCGGUAGau -5'
30561 3' -61.6 NC_006548.1 + 20570 0.69 0.177056
Target:  5'- aGGCUgcuGCGGCGUCGACGCCuUCUAu -3'
miRNA:   3'- -CCGGaccCGCCGUGGCUGCGGuAGAU- -5'
30561 3' -61.6 NC_006548.1 + 20524 0.7 0.146442
Target:  5'- cGCCUGGGCacuGGCACCGugGgUGaCUGc -3'
miRNA:   3'- cCGGACCCG---CCGUGGCugCgGUaGAU- -5'
30561 3' -61.6 NC_006548.1 + 18456 0.71 0.138624
Target:  5'- aGCCgguucGGGUGGCAgCGGCGUgGUCUu -3'
miRNA:   3'- cCGGa----CCCGCCGUgGCUGCGgUAGAu -5'
30561 3' -61.6 NC_006548.1 + 35194 0.72 0.114191
Target:  5'- aGGCCgaGGGCGGCAUCGuuGgGCCG-CUGg -3'
miRNA:   3'- -CCGGa-CCCGCCGUGGC--UgCGGUaGAU- -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.