miRNA display CGI


Results 1 - 13 of 13 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
30430 3' -59.6 NC_006548.1 + 5629 0.66 0.340781
Target:  5'- -cCGGCACGCCuucggGGUGGgUCuUCUUGAg -3'
miRNA:   3'- uaGUCGUGCGG-----UCGCCgAG-AGGACUa -5'
30430 3' -59.6 NC_006548.1 + 32002 0.66 0.340781
Target:  5'- -cCAGCGCGCUGGuCGGCUaugcaUUCCgGGUg -3'
miRNA:   3'- uaGUCGUGCGGUC-GCCGA-----GAGGaCUA- -5'
30430 3' -59.6 NC_006548.1 + 33699 0.66 0.324225
Target:  5'- cAUCAGCACaGCCAGCacGGUgUUCCgagGAg -3'
miRNA:   3'- -UAGUCGUG-CGGUCG--CCGaGAGGa--CUa -5'
30430 3' -59.6 NC_006548.1 + 28689 0.66 0.300528
Target:  5'- --aGGCGCG-CAGCGGCUUUgucuucgccgCCUGAUg -3'
miRNA:   3'- uagUCGUGCgGUCGCCGAGA----------GGACUA- -5'
30430 3' -59.6 NC_006548.1 + 33068 0.67 0.292932
Target:  5'- -aCAGCGCGCaggcGCGGUUcCUCgUGAUg -3'
miRNA:   3'- uaGUCGUGCGgu--CGCCGA-GAGgACUA- -5'
30430 3' -59.6 NC_006548.1 + 23856 0.67 0.284751
Target:  5'- -cCGGCAUgGCCGGCGGgCuugggugagagagUCUCCUGGg -3'
miRNA:   3'- uaGUCGUG-CGGUCGCC-G-------------AGAGGACUa -5'
30430 3' -59.6 NC_006548.1 + 22543 0.67 0.278192
Target:  5'- -aCAGC-CGCCGGCGGaggagagCCUGAUc -3'
miRNA:   3'- uaGUCGuGCGGUCGCCgaga---GGACUA- -5'
30430 3' -59.6 NC_006548.1 + 5318 0.67 0.26683
Target:  5'- cGUUGGCGCGCCGG-GGCUCcacuucuucaaaugCCUGGc -3'
miRNA:   3'- -UAGUCGUGCGGUCgCCGAGa-------------GGACUa -5'
30430 3' -59.6 NC_006548.1 + 842 0.69 0.207535
Target:  5'- -gCGGCuuGCCGGCGGCUCgCUUGc- -3'
miRNA:   3'- uaGUCGugCGGUCGCCGAGaGGACua -5'
30430 3' -59.6 NC_006548.1 + 8003 0.69 0.20697
Target:  5'- -gCAGCGCGCCggaugaugcaGGCGGCgcucaaauaccugUCUCCUGc- -3'
miRNA:   3'- uaGUCGUGCGG----------UCGCCG-------------AGAGGACua -5'
30430 3' -59.6 NC_006548.1 + 7066 0.7 0.175924
Target:  5'- gAUCuuCGCGCCAGCGGCUUgaUCCgugcgGAg -3'
miRNA:   3'- -UAGucGUGCGGUCGCCGAG--AGGa----CUa -5'
30430 3' -59.6 NC_006548.1 + 8832 0.72 0.125314
Target:  5'- gAUCAGCggaAUGCCAGUGGCuuUCUCCaGAg -3'
miRNA:   3'- -UAGUCG---UGCGGUCGCCG--AGAGGaCUa -5'
30430 3' -59.6 NC_006548.1 + 12307 1.04 0.000381
Target:  5'- cAUCAGCACGCCAGCGGCUCUCCUGAUg -3'
miRNA:   3'- -UAGUCGUGCGGUCGCCGAGAGGACUA- -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.