miRNA display CGI


Results 1 - 15 of 15 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
23347 3' -59.8 NC_005259.1 + 12055 0.66 0.52619
Target:  5'- cGAGGCCGaGCUcugCGGCAgacaccgagaugggCACCUUGGu -3'
miRNA:   3'- -UUCUGGC-CGGa--GCCGUa-------------GUGGAGCCu -5'
23347 3' -59.8 NC_005259.1 + 61071 0.66 0.491997
Target:  5'- cGGGcAUCGGCauaGGCGUCgucgGCCUCGGGc -3'
miRNA:   3'- -UUC-UGGCCGgagCCGUAG----UGGAGCCU- -5'
23347 3' -59.8 NC_005259.1 + 52281 0.67 0.453142
Target:  5'- cAGGACCGGCCcgaugCGcGCcuAUCucuACCUCGGu -3'
miRNA:   3'- -UUCUGGCCGGa----GC-CG--UAG---UGGAGCCu -5'
23347 3' -59.8 NC_005259.1 + 54307 0.67 0.443689
Target:  5'- cAGcACCGuGCa-CGGCuauuUCACCUCGGGg -3'
miRNA:   3'- uUC-UGGC-CGgaGCCGu---AGUGGAGCCU- -5'
23347 3' -59.8 NC_005259.1 + 52579 0.67 0.434349
Target:  5'- cGGACCGGCCUgaGCGUCGCCgagCa-- -3'
miRNA:   3'- uUCUGGCCGGAgcCGUAGUGGa--Gccu -5'
23347 3' -59.8 NC_005259.1 + 44554 0.68 0.416017
Target:  5'- cGAGACCGGCa--GGCAgcgCGCCgacCGGc -3'
miRNA:   3'- -UUCUGGCCGgagCCGUa--GUGGa--GCCu -5'
23347 3' -59.8 NC_005259.1 + 23307 0.68 0.416017
Target:  5'- gGGGuCCGGCgCggUCGGUGUCGCCgagcCGGAu -3'
miRNA:   3'- -UUCuGGCCG-G--AGCCGUAGUGGa---GCCU- -5'
23347 3' -59.8 NC_005259.1 + 58839 0.68 0.416017
Target:  5'- --cGCCGcCCUCGGUcUCAcCCUCGGGc -3'
miRNA:   3'- uucUGGCcGGAGCCGuAGU-GGAGCCU- -5'
23347 3' -59.8 NC_005259.1 + 58866 0.69 0.346855
Target:  5'- --cGCCGucgucgucgucGCCUCGGCAUCGCCgucgucaucacccUCGGGc -3'
miRNA:   3'- uucUGGC-----------CGGAGCCGUAGUGG-------------AGCCU- -5'
23347 3' -59.8 NC_005259.1 + 34022 0.69 0.339696
Target:  5'- ---uCCGGCCUCGGCGgcgUGCgUCGGc -3'
miRNA:   3'- uucuGGCCGGAGCCGUa--GUGgAGCCu -5'
23347 3' -59.8 NC_005259.1 + 49581 0.7 0.324175
Target:  5'- cAGACCGGCgggCGGgGUCagcaccucgACCUCGGGc -3'
miRNA:   3'- uUCUGGCCGga-GCCgUAG---------UGGAGCCU- -5'
23347 3' -59.8 NC_005259.1 + 4740 0.71 0.260919
Target:  5'- aAGGACCGGCUcaGGCcgGUC-CCUCGGGc -3'
miRNA:   3'- -UUCUGGCCGGagCCG--UAGuGGAGCCU- -5'
23347 3' -59.8 NC_005259.1 + 34900 0.72 0.242187
Target:  5'- cAGGACgGGCCgcUCgGGCAUCacacugcuGCCUCGGGc -3'
miRNA:   3'- -UUCUGgCCGG--AG-CCGUAG--------UGGAGCCU- -5'
23347 3' -59.8 NC_005259.1 + 8371 0.77 0.107051
Target:  5'- -cGGCggCGGCCUCGGCAUCggcgagaGCCUCGGc -3'
miRNA:   3'- uuCUG--GCCGGAGCCGUAG-------UGGAGCCu -5'
23347 3' -59.8 NC_005259.1 + 1246 1.06 0.000756
Target:  5'- cAAGACCGGCCUCGGCAUCACCUCGGAu -3'
miRNA:   3'- -UUCUGGCCGGAGCCGUAGUGGAGCCU- -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.