miRNA display CGI


Results 1 - 20 of 22 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
22876 3' -49.3 NC_005137.2 + 130405 0.66 0.997722
Target:  5'- uCGAacaUGAGGaGGAUGAAaaGCAUCUugACc -3'
miRNA:   3'- -GCU---ACUUCgCCUGCUU--UGUGGAugUG- -5'
22876 3' -49.3 NC_005137.2 + 53087 0.66 0.996196
Target:  5'- gCGAUGAAGUgcaGGugGGuguguuuGCGgUUGCACg -3'
miRNA:   3'- -GCUACUUCG---CCugCUu------UGUgGAUGUG- -5'
22876 3' -49.3 NC_005137.2 + 42063 0.66 0.996196
Target:  5'- aGAUuGgcGCGGGCGAAACGC--GCGu -3'
miRNA:   3'- gCUA-CuuCGCCUGCUUUGUGgaUGUg -5'
22876 3' -49.3 NC_005137.2 + 124955 0.67 0.991861
Target:  5'- gCGAUGAAcGCGGcgccggugAUGggGCG-CUGCGCu -3'
miRNA:   3'- -GCUACUU-CGCC--------UGCuuUGUgGAUGUG- -5'
22876 3' -49.3 NC_005137.2 + 112399 0.67 0.991629
Target:  5'- uGAUGAAGCGGAacuaugguCACgCUGCGg -3'
miRNA:   3'- gCUACUUCGCCUgcuuu---GUG-GAUGUg -5'
22876 3' -49.3 NC_005137.2 + 31810 0.68 0.989293
Target:  5'- gCGAUGcGGCGGcccaaugccGCGuuACACgUACAUg -3'
miRNA:   3'- -GCUACuUCGCC---------UGCuuUGUGgAUGUG- -5'
22876 3' -49.3 NC_005137.2 + 81690 0.68 0.989293
Target:  5'- cCGGUGu--CGGGCGGAACACCa---- -3'
miRNA:   3'- -GCUACuucGCCUGCUUUGUGGaugug -5'
22876 3' -49.3 NC_005137.2 + 77728 0.68 0.987791
Target:  5'- ------cGUGGGCGuuAAACACCUGCAUg -3'
miRNA:   3'- gcuacuuCGCCUGC--UUUGUGGAUGUG- -5'
22876 3' -49.3 NC_005137.2 + 41906 0.68 0.984306
Target:  5'- uCGAaGAGGCGG-CGAAACcaacaugaCUACGCu -3'
miRNA:   3'- -GCUaCUUCGCCuGCUUUGug------GAUGUG- -5'
22876 3' -49.3 NC_005137.2 + 88485 0.68 0.984306
Target:  5'- cCGAUucGGGCGGGCGAgcgauuAGCGCgCUAUACc -3'
miRNA:   3'- -GCUAc-UUCGCCUGCU------UUGUG-GAUGUG- -5'
22876 3' -49.3 NC_005137.2 + 35310 0.69 0.980111
Target:  5'- aCGGUGcGGUGGugGGcguCACC-ACGCg -3'
miRNA:   3'- -GCUACuUCGCCugCUuu-GUGGaUGUG- -5'
22876 3' -49.3 NC_005137.2 + 82050 0.69 0.977725
Target:  5'- cCGAUGAGGCGuGuCGuAAUGCUUACAa -3'
miRNA:   3'- -GCUACUUCGC-CuGCuUUGUGGAUGUg -5'
22876 3' -49.3 NC_005137.2 + 24182 0.69 0.977725
Target:  5'- -cGUGAGGCGGACGuucAACugCUGa-- -3'
miRNA:   3'- gcUACUUCGCCUGCu--UUGugGAUgug -5'
22876 3' -49.3 NC_005137.2 + 74137 0.69 0.969304
Target:  5'- gCGAUGAAgGCGGuuUGAcuaAACGCCaACGCg -3'
miRNA:   3'- -GCUACUU-CGCCu-GCU---UUGUGGaUGUG- -5'
22876 3' -49.3 NC_005137.2 + 75584 0.7 0.962561
Target:  5'- gGcgGAcGCGGGCG--GCGCCgUGCGCg -3'
miRNA:   3'- gCuaCUuCGCCUGCuuUGUGG-AUGUG- -5'
22876 3' -49.3 NC_005137.2 + 107050 0.7 0.954849
Target:  5'- --uUGAGGCgcucGGACGAggUGCgCUGCGCg -3'
miRNA:   3'- gcuACUUCG----CCUGCUuuGUG-GAUGUG- -5'
22876 3' -49.3 NC_005137.2 + 63912 0.71 0.941379
Target:  5'- gCGAUGcuuGGCGGACGGuuCGCacgcggUGCGCg -3'
miRNA:   3'- -GCUACu--UCGCCUGCUuuGUGg-----AUGUG- -5'
22876 3' -49.3 NC_005137.2 + 64108 0.71 0.936366
Target:  5'- ---gGAAGCGGuACGAAACACCa---- -3'
miRNA:   3'- gcuaCUUCGCC-UGCUUUGUGGaugug -5'
22876 3' -49.3 NC_005137.2 + 37801 0.73 0.893863
Target:  5'- uGAUGAGGUGGACGGuguguauuuucGACugC-ACGCc -3'
miRNA:   3'- gCUACUUCGCCUGCU-----------UUGugGaUGUG- -5'
22876 3' -49.3 NC_005137.2 + 67350 0.73 0.879384
Target:  5'- uCGGUGAccGCGGGCGcGACGCgaUGCGCg -3'
miRNA:   3'- -GCUACUu-CGCCUGCuUUGUGg-AUGUG- -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.