miRNA display CGI


Results 1 - 20 of 21 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
21335 3' -48.8 NC_004778.3 + 123878 0.66 0.997436
Target:  5'- gCAGCAUGUGCaauaGAGcGACacCGACGUGc -3'
miRNA:   3'- aGUUGUACAUG----CUC-CUGacGUUGCAC- -5'
21335 3' -48.8 NC_004778.3 + 85453 0.66 0.996948
Target:  5'- aCGGCAUGgACGcGGGCguuUGCGGCGg- -3'
miRNA:   3'- aGUUGUACaUGCuCCUG---ACGUUGCac -5'
21335 3' -48.8 NC_004778.3 + 25839 0.66 0.996948
Target:  5'- gCGACG---GCGGcGGAUUGUAGCGUGc -3'
miRNA:   3'- aGUUGUacaUGCU-CCUGACGUUGCAC- -5'
21335 3' -48.8 NC_004778.3 + 121242 0.66 0.996948
Target:  5'- gCGGCGaGU-CGGGGuCUGCGGCGg- -3'
miRNA:   3'- aGUUGUaCAuGCUCCuGACGUUGCac -5'
21335 3' -48.8 NC_004778.3 + 36525 0.67 0.996387
Target:  5'- uUCGACAaaguugccuaUG-ACGuuGGAgUGCAGCGUGc -3'
miRNA:   3'- -AGUUGU----------ACaUGCu-CCUgACGUUGCAC- -5'
21335 3' -48.8 NC_004778.3 + 121855 0.67 0.994174
Target:  5'- aCAACGUGcccgACGcGGGCcUGC-ACGUGa -3'
miRNA:   3'- aGUUGUACa---UGCuCCUG-ACGuUGCAC- -5'
21335 3' -48.8 NC_004778.3 + 61968 0.67 0.993231
Target:  5'- -gAACAUGU-CGGGGcgcuugccGCUGC-GCGUGg -3'
miRNA:   3'- agUUGUACAuGCUCC--------UGACGuUGCAC- -5'
21335 3' -48.8 NC_004778.3 + 85555 0.69 0.982764
Target:  5'- gCGACGUGUACGGcgucgcccacgcGGGCguuUGCGGCGg- -3'
miRNA:   3'- aGUUGUACAUGCU------------CCUG---ACGUUGCac -5'
21335 3' -48.8 NC_004778.3 + 56131 0.69 0.982764
Target:  5'- uUCAACAUGcaggACGuGGGCgGCGACa-- -3'
miRNA:   3'- -AGUUGUACa---UGCuCCUGaCGUUGcac -5'
21335 3' -48.8 NC_004778.3 + 128345 0.69 0.982764
Target:  5'- aCuGCGUGUAuaucugcgcuugUGGGGACgacgGCGGCGUGu -3'
miRNA:   3'- aGuUGUACAU------------GCUCCUGa---CGUUGCAC- -5'
21335 3' -48.8 NC_004778.3 + 47369 0.69 0.978234
Target:  5'- aCAGCGUGcgGCGuuauuuuGGGC-GCGACGUGu -3'
miRNA:   3'- aGUUGUACa-UGCu------CCUGaCGUUGCAC- -5'
21335 3' -48.8 NC_004778.3 + 25651 0.7 0.96987
Target:  5'- -aAGCuUGcGCGGGGGCcgGCGGCGUGu -3'
miRNA:   3'- agUUGuACaUGCUCCUGa-CGUUGCAC- -5'
21335 3' -48.8 NC_004778.3 + 75812 0.7 0.96987
Target:  5'- gUCAAUuUGUugGGcGACUGCGcaGCGUGc -3'
miRNA:   3'- -AGUUGuACAugCUcCUGACGU--UGCAC- -5'
21335 3' -48.8 NC_004778.3 + 51188 0.7 0.963153
Target:  5'- cUUAAUAcuuUGCGAGGACgGUAACGUGu -3'
miRNA:   3'- -AGUUGUac-AUGCUCCUGaCGUUGCAC- -5'
21335 3' -48.8 NC_004778.3 + 50917 0.7 0.963153
Target:  5'- aUCGGCAUGauCGAGGGCcuuaGCAACGa- -3'
miRNA:   3'- -AGUUGUACauGCUCCUGa---CGUUGCac -5'
21335 3' -48.8 NC_004778.3 + 29833 0.71 0.951226
Target:  5'- aUCAACGUGUGCGAucaugaGGACaGCAcCGa- -3'
miRNA:   3'- -AGUUGUACAUGCU------CCUGaCGUuGCac -5'
21335 3' -48.8 NC_004778.3 + 29682 0.71 0.94198
Target:  5'- -aGugGUGUGCGAGuAUUGCGGCGUu -3'
miRNA:   3'- agUugUACAUGCUCcUGACGUUGCAc -5'
21335 3' -48.8 NC_004778.3 + 74876 0.72 0.926105
Target:  5'- aUCAACAUGUACGA--GCUG--GCGUGg -3'
miRNA:   3'- -AGUUGUACAUGCUccUGACguUGCAC- -5'
21335 3' -48.8 NC_004778.3 + 101470 0.72 0.9078
Target:  5'- uUCAGCAUGcGCGucaAGGugUGCGAUGa- -3'
miRNA:   3'- -AGUUGUACaUGC---UCCugACGUUGCac -5'
21335 3' -48.8 NC_004778.3 + 51395 0.73 0.872027
Target:  5'- -gGGCAUGU-CGAGG-CUGCAACGc- -3'
miRNA:   3'- agUUGUACAuGCUCCuGACGUUGCac -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.