miRNA display CGI


Results 1 - 20 of 23 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
12412 3' -49.1 NC_003324.1 + 42609 0.66 0.969403
Target:  5'- ---cGAUACUUcgUCUGCuuauagucAUCgcgCGGCGCCg -3'
miRNA:   3'- gcuaCUAUGAA--AGACG--------UAG---GUCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 7909 0.66 0.965942
Target:  5'- gGAgGAaACUUUCUGUucgCCGGC-CCg -3'
miRNA:   3'- gCUaCUaUGAAAGACGua-GGUCGcGG- -5'
12412 3' -49.1 NC_003324.1 + 38334 0.67 0.944494
Target:  5'- cCGAccUGAUgGCgaUCgGCAuUCCGGCGCUg -3'
miRNA:   3'- -GCU--ACUA-UGaaAGaCGU-AGGUCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 28270 0.67 0.944494
Target:  5'- uCGGUGGaagcUACaucgCUugcGCGUUCGGCGCCg -3'
miRNA:   3'- -GCUACU----AUGaaa-GA---CGUAGGUCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 54338 0.67 0.939336
Target:  5'- gCGcUGAUGCcggUCcaugGCAaCCGGUGCCg -3'
miRNA:   3'- -GCuACUAUGaa-AGa---CGUaGGUCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 35095 0.68 0.924523
Target:  5'- cCGGUGGcAUcaUCUGCcuuuccgucgucgCCAGCGCCg -3'
miRNA:   3'- -GCUACUaUGaaAGACGua-----------GGUCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 53431 0.68 0.915705
Target:  5'- aGAUGAuUGCUUgagcgUCUGCGcacggaugaagUCCAuGCGCUc -3'
miRNA:   3'- gCUACU-AUGAA-----AGACGU-----------AGGU-CGCGG- -5'
12412 3' -49.1 NC_003324.1 + 36808 0.68 0.902091
Target:  5'- gGAUGAUgucACUg---GCuaCCAGCGCCa -3'
miRNA:   3'- gCUACUA---UGAaagaCGuaGGUCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 53791 0.69 0.894843
Target:  5'- ---cGcUGCUUcaUCcaggcgucgcaUGCGUCCAGCGCCu -3'
miRNA:   3'- gcuaCuAUGAA--AG-----------ACGUAGGUCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 17198 0.7 0.845504
Target:  5'- gGAcGcgGCUUUCgGCGUUCuugAGCGCCg -3'
miRNA:   3'- gCUaCuaUGAAAGaCGUAGG---UCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 18427 0.7 0.836376
Target:  5'- aCGAUcAUGCUUggcCUGCcaAUCCucGGCGCCc -3'
miRNA:   3'- -GCUAcUAUGAAa--GACG--UAGG--UCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 13818 0.71 0.807633
Target:  5'- gGAUGAUGuaUUCccgcGuCAUCCAGUGCCu -3'
miRNA:   3'- gCUACUAUgaAAGa---C-GUAGGUCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 4558 0.71 0.787451
Target:  5'- aGAgGAUGUgagCcGCAUCCGGCGCCu -3'
miRNA:   3'- gCUaCUAUGaaaGaCGUAGGUCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 48755 0.71 0.787451
Target:  5'- aGGUGAUGCcgagaUGCGcagCCAGCGUCu -3'
miRNA:   3'- gCUACUAUGaaag-ACGUa--GGUCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 49521 0.71 0.77709
Target:  5'- aGGUGAUAU--UCUGCcagAUCagccaAGCGCCg -3'
miRNA:   3'- gCUACUAUGaaAGACG---UAGg----UCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 32906 0.71 0.77709
Target:  5'- gCGAUGAUcgagGCgg-CUGCccgCCAuGCGCCg -3'
miRNA:   3'- -GCUACUA----UGaaaGACGua-GGU-CGCGG- -5'
12412 3' -49.1 NC_003324.1 + 24102 0.71 0.766565
Target:  5'- gCGcUGAUACccuugucguagUUCUGC-UCCAGCGCg -3'
miRNA:   3'- -GCuACUAUGa----------AAGACGuAGGUCGCGg -5'
12412 3' -49.1 NC_003324.1 + 36708 0.72 0.73414
Target:  5'- uCGAUGAUGCgga-UGCG-CUGGCGCUg -3'
miRNA:   3'- -GCUACUAUGaaagACGUaGGUCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 35491 0.74 0.620745
Target:  5'- gCGAUcgccGUACcggCUGCuUCCAGCGCCg -3'
miRNA:   3'- -GCUAc---UAUGaaaGACGuAGGUCGCGG- -5'
12412 3' -49.1 NC_003324.1 + 23188 0.78 0.414777
Target:  5'- gCGAgcgcGGUACcgcUCUGCAUCguGCGCCa -3'
miRNA:   3'- -GCUa---CUAUGaa-AGACGUAGguCGCGG- -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.