miRNA display CGI


Results 1 - 16 of 16 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
31900 3' -62.8 NC_006938.1 + 32835 0.66 0.40698
Target:  5'- -gCUGGCCgcguggcucgAGGgcaGCUgGGACAUCGUGg -3'
miRNA:   3'- gaGGCCGG----------UCCa--CGGgCCUGUGGCAC- -5'
31900 3' -62.8 NC_006938.1 + 30730 0.66 0.398324
Target:  5'- -cCUGaGCCAGGgucgcgGCUCGGGCGCguuCGUGc -3'
miRNA:   3'- gaGGC-CGGUCCa-----CGGGCCUGUG---GCAC- -5'
31900 3' -62.8 NC_006938.1 + 34133 0.66 0.389787
Target:  5'- -cUCGGCCcGGagGCCUGGAC-CCGcUGg -3'
miRNA:   3'- gaGGCCGGuCCa-CGGGCCUGuGGC-AC- -5'
31900 3' -62.8 NC_006938.1 + 4912 0.66 0.381371
Target:  5'- aCUCCucGGCC-GGUGCCaggucauacuUGGGCACCa-- -3'
miRNA:   3'- -GAGG--CCGGuCCACGG----------GCCUGUGGcac -5'
31900 3' -62.8 NC_006938.1 + 53907 0.66 0.381371
Target:  5'- --gCGGCCucGGUGCCCaGGGUGCCaGUGg -3'
miRNA:   3'- gagGCCGGu-CCACGGG-CCUGUGG-CAC- -5'
31900 3' -62.8 NC_006938.1 + 47706 0.66 0.373076
Target:  5'- cCUCCGguGCCgAGcGUGUauCCGG-CGCCGUGa -3'
miRNA:   3'- -GAGGC--CGG-UC-CACG--GGCCuGUGGCAC- -5'
31900 3' -62.8 NC_006938.1 + 32106 0.66 0.364906
Target:  5'- -gCCGGUgAcucuGGUGCCacgaGGACGCCuGUGu -3'
miRNA:   3'- gaGGCCGgU----CCACGGg---CCUGUGG-CAC- -5'
31900 3' -62.8 NC_006938.1 + 34996 0.67 0.356859
Target:  5'- aUCUGGaCCAGGUcgGCCgGGGCgaaCGUGu -3'
miRNA:   3'- gAGGCC-GGUCCA--CGGgCCUGug-GCAC- -5'
31900 3' -62.8 NC_006938.1 + 15849 0.67 0.33883
Target:  5'- -aCCGGCCAGGUacaugucgucuggcGCgaccCCGGACGCgGa- -3'
miRNA:   3'- gaGGCCGGUCCA--------------CG----GGCCUGUGgCac -5'
31900 3' -62.8 NC_006938.1 + 28380 0.69 0.263779
Target:  5'- cCUCCGGCCGcccuacacGGUcaaCCCGG-CACCGg- -3'
miRNA:   3'- -GAGGCCGGU--------CCAc--GGGCCuGUGGCac -5'
31900 3' -62.8 NC_006938.1 + 45590 0.71 0.1914
Target:  5'- -aCCGGCUuuGGUGUCCaGGACGCCa-- -3'
miRNA:   3'- gaGGCCGGu-CCACGGG-CCUGUGGcac -5'
31900 3' -62.8 NC_006938.1 + 29843 0.71 0.168548
Target:  5'- --aCGGCCAGGUGCCaaaggagagacUGGACgcgGCUGUGa -3'
miRNA:   3'- gagGCCGGUCCACGG-----------GCCUG---UGGCAC- -5'
31900 3' -62.8 NC_006938.1 + 33811 0.72 0.160111
Target:  5'- gCUgCGaGCCGuGGU-CCCGGACAUCGUGa -3'
miRNA:   3'- -GAgGC-CGGU-CCAcGGGCCUGUGGCAC- -5'
31900 3' -62.8 NC_006938.1 + 7658 0.73 0.13006
Target:  5'- ---aGGCCAcGGUGUCCGGGCACC-UGg -3'
miRNA:   3'- gaggCCGGU-CCACGGGCCUGUGGcAC- -5'
31900 3' -62.8 NC_006938.1 + 55992 0.77 0.070368
Target:  5'- -cUCGGCCAGGUGCuuGGcCAgCGUGg -3'
miRNA:   3'- gaGGCCGGUCCACGggCCuGUgGCAC- -5'
31900 3' -62.8 NC_006938.1 + 55899 1.08 0.000295
Target:  5'- gCUCCGGCCAGGUGCCCGGACACCGUGg -3'
miRNA:   3'- -GAGGCCGGUCCACGGGCCUGUGGCAC- -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.