miRNA display CGI


Results 1 - 20 of 25 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
13000 3' -51.3 NC_003387.1 + 22079 0.66 0.877215
Target:  5'- gCGA-CG-GCGGuAGCGCGUggGGCa- -3'
miRNA:   3'- -GCUaGUaCGCCuUCGUGCGuuUCGac -5'
13000 3' -51.3 NC_003387.1 + 41129 0.66 0.877215
Target:  5'- gGAUCAaGUGGcAGCGCGCcGAcggccGCUGc -3'
miRNA:   3'- gCUAGUaCGCCuUCGUGCGuUU-----CGAC- -5'
13000 3' -51.3 NC_003387.1 + 33188 0.66 0.877215
Target:  5'- cCGccgCAUGCGGAucgcgcAGCgcaaGCGCGAGGCc- -3'
miRNA:   3'- -GCua-GUACGCCU------UCG----UGCGUUUCGac -5'
13000 3' -51.3 NC_003387.1 + 52489 0.66 0.869058
Target:  5'- uGAgCAUGuCGGggGCGCGCAu-GUc- -3'
miRNA:   3'- gCUaGUAC-GCCuuCGUGCGUuuCGac -5'
13000 3' -51.3 NC_003387.1 + 45487 0.66 0.860634
Target:  5'- uCGAcCAUGCGuGAGUGCGCGAA-CUGc -3'
miRNA:   3'- -GCUaGUACGCcUUCGUGCGUUUcGAC- -5'
13000 3' -51.3 NC_003387.1 + 44585 0.66 0.859777
Target:  5'- gCGGUCGcUGCccggccgGGAcagcAGCGCGUAcGAGCUGg -3'
miRNA:   3'- -GCUAGU-ACG-------CCU----UCGUGCGU-UUCGAC- -5'
13000 3' -51.3 NC_003387.1 + 30684 0.67 0.84302
Target:  5'- cCGGUCGcaccgGCGGggGCGuuuucgugcgccUGCGGGGCg- -3'
miRNA:   3'- -GCUAGUa----CGCCuuCGU------------GCGUUUCGac -5'
13000 3' -51.3 NC_003387.1 + 22144 0.67 0.84302
Target:  5'- gCGAcguUCAcugGCGGcGGCACGCucAGCg- -3'
miRNA:   3'- -GCU---AGUa--CGCCuUCGUGCGuuUCGac -5'
13000 3' -51.3 NC_003387.1 + 26450 0.67 0.833848
Target:  5'- gCGA-CGuUGCGGucGAGCACGCccauGCUGa -3'
miRNA:   3'- -GCUaGU-ACGCC--UUCGUGCGuuu-CGAC- -5'
13000 3' -51.3 NC_003387.1 + 42525 0.67 0.832918
Target:  5'- cCGAUCAcGCGGcccGCaugaccgACGCcGAGCUGg -3'
miRNA:   3'- -GCUAGUaCGCCuu-CG-------UGCGuUUCGAC- -5'
13000 3' -51.3 NC_003387.1 + 2964 0.67 0.824446
Target:  5'- uGAUCAgcggGUGGAccGGCA-GCAAGGCc- -3'
miRNA:   3'- gCUAGUa---CGCCU--UCGUgCGUUUCGac -5'
13000 3' -51.3 NC_003387.1 + 48973 0.67 0.813851
Target:  5'- gCGAUCGUGCacgcGGGCAUGCGGccgucgaucgcguGGCUGu -3'
miRNA:   3'- -GCUAGUACGcc--UUCGUGCGUU-------------UCGAC- -5'
13000 3' -51.3 NC_003387.1 + 3954 0.68 0.804995
Target:  5'- aCGAcCcgGUGGucGCGCuGCAAGGCUc -3'
miRNA:   3'- -GCUaGuaCGCCuuCGUG-CGUUUCGAc -5'
13000 3' -51.3 NC_003387.1 + 22939 0.68 0.794969
Target:  5'- uCGAUCGgcaUGCGGu--CACGCcguAGCUGa -3'
miRNA:   3'- -GCUAGU---ACGCCuucGUGCGuu-UCGAC- -5'
13000 3' -51.3 NC_003387.1 + 17787 0.68 0.794969
Target:  5'- aCGAUCcccAUGuCGGAGcGCACGCccgAGAGCa- -3'
miRNA:   3'- -GCUAG---UAC-GCCUU-CGUGCG---UUUCGac -5'
13000 3' -51.3 NC_003387.1 + 22837 0.68 0.774378
Target:  5'- gCGAUCGccaacGCGaucGGCGCGCAAGGCg- -3'
miRNA:   3'- -GCUAGUa----CGCcu-UCGUGCGUUUCGac -5'
13000 3' -51.3 NC_003387.1 + 3943 0.68 0.763837
Target:  5'- gCGAUCA-GCGGcGAGCugGCugcgccGAGCa- -3'
miRNA:   3'- -GCUAGUaCGCC-UUCGugCGu-----UUCGac -5'
13000 3' -51.3 NC_003387.1 + 8915 0.69 0.720337
Target:  5'- cCGAUCGUGCagcacucgucgaGGAAGCGgGCGAcGCc- -3'
miRNA:   3'- -GCUAGUACG------------CCUUCGUgCGUUuCGac -5'
13000 3' -51.3 NC_003387.1 + 39928 0.71 0.618132
Target:  5'- gCGGUCGuUGC-GAGGCGCGCAuuGCg- -3'
miRNA:   3'- -GCUAGU-ACGcCUUCGUGCGUuuCGac -5'
13000 3' -51.3 NC_003387.1 + 41868 0.71 0.595271
Target:  5'- aGAUCGgcagaccGCGGucggcGAGCugGCGAAGCUc -3'
miRNA:   3'- gCUAGUa------CGCC-----UUCGugCGUUUCGAc -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.