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
23152 3' -60.7 NC_005178.1 + 8167 0.66 0.298079
Target:  5'- aUAGCAGCuGCGCUcguagGGgCUGCUGAuGCc- -3'
miRNA:   3'- -GUCGUCG-CGCGG-----CCgGAUGACU-CGau -5'
23152 3' -60.7 NC_005178.1 + 4120 0.66 0.298079
Target:  5'- cCAGCAGgGUGUgGGUCUACgacGGCg- -3'
miRNA:   3'- -GUCGUCgCGCGgCCGGAUGac-UCGau -5'
23152 3' -60.7 NC_005178.1 + 14852 0.66 0.295073
Target:  5'- uCGGCAGCGacccggcgauccaGCuCGGCCUGggcgaggucgccCUGGGCUu -3'
miRNA:   3'- -GUCGUCGCg------------CG-GCCGGAU------------GACUCGAu -5'
23152 3' -60.7 NC_005178.1 + 11336 0.66 0.290609
Target:  5'- gAGcCAGCG-GUCGGCCUGCUGuucGUUu -3'
miRNA:   3'- gUC-GUCGCgCGGCCGGAUGACu--CGAu -5'
23152 3' -60.7 NC_005178.1 + 23463 0.66 0.28987
Target:  5'- gGGCgcccGGCGCgaaGCCGGCCcGCUGcucggccGGCUGc -3'
miRNA:   3'- gUCG----UCGCG---CGGCCGGaUGAC-------UCGAU- -5'
23152 3' -60.7 NC_005178.1 + 27735 0.66 0.283286
Target:  5'- gCAGCAGCGC-CUGGaCCUGgcGAGCc- -3'
miRNA:   3'- -GUCGUCGCGcGGCC-GGAUgaCUCGau -5'
23152 3' -60.7 NC_005178.1 + 11142 0.66 0.283286
Target:  5'- uCAGCGcGgGCGCCcuGGCCgccgccCUGGGCUu -3'
miRNA:   3'- -GUCGU-CgCGCGG--CCGGau----GACUCGAu -5'
23152 3' -60.7 NC_005178.1 + 4520 0.66 0.27611
Target:  5'- gCGGCAaCGCuCCGGCCUGCccaucGAGCc- -3'
miRNA:   3'- -GUCGUcGCGcGGCCGGAUGa----CUCGau -5'
23152 3' -60.7 NC_005178.1 + 22444 0.67 0.262196
Target:  5'- cCAGCuGCGCGUCGaGuCCUGC-GAGUUc -3'
miRNA:   3'- -GUCGuCGCGCGGC-C-GGAUGaCUCGAu -5'
23152 3' -60.7 NC_005178.1 + 32915 0.67 0.248857
Target:  5'- cCAGCGGCGUggucGCCGGCaUGCcGAugGCUGg -3'
miRNA:   3'- -GUCGUCGCG----CGGCCGgAUGaCU--CGAU- -5'
23152 3' -60.7 NC_005178.1 + 26452 0.67 0.248857
Target:  5'- uCAGCAGCGCggcgcuGCCGGCCgaggugGAuGCg- -3'
miRNA:   3'- -GUCGUCGCG------CGGCCGGauga--CU-CGau -5'
23152 3' -60.7 NC_005178.1 + 30274 0.67 0.2424
Target:  5'- aCAGCGGCgGCGgCaGCgUGCUGcGGCUAg -3'
miRNA:   3'- -GUCGUCG-CGCgGcCGgAUGAC-UCGAU- -5'
23152 3' -60.7 NC_005178.1 + 33924 0.67 0.2424
Target:  5'- uCGGCGGCcgGUGCCGGCUUuccgGGGCg- -3'
miRNA:   3'- -GUCGUCG--CGCGGCCGGAuga-CUCGau -5'
23152 3' -60.7 NC_005178.1 + 20714 0.67 0.2424
Target:  5'- gAGCGGCGCGaccaggcuaUCGGCCUGguuuugcaugucCUGGGCc- -3'
miRNA:   3'- gUCGUCGCGC---------GGCCGGAU------------GACUCGau -5'
23152 3' -60.7 NC_005178.1 + 21795 0.67 0.23236
Target:  5'- gCAGCAGCucguggagauacuccGCGUCGGCCUucuCUGcGGCc- -3'
miRNA:   3'- -GUCGUCG---------------CGCGGCCGGAu--GAC-UCGau -5'
23152 3' -60.7 NC_005178.1 + 7502 0.68 0.206548
Target:  5'- aGGUgauAGCGCGUgaaUGGCCcggcGCUGAGCUGc -3'
miRNA:   3'- gUCG---UCGCGCG---GCCGGa---UGACUCGAU- -5'
23152 3' -60.7 NC_005178.1 + 35494 0.68 0.195657
Target:  5'- aCGGUAGCGCGUacccggcgaaGGUCUACgGGGCg- -3'
miRNA:   3'- -GUCGUCGCGCGg---------CCGGAUGaCUCGau -5'
23152 3' -60.7 NC_005178.1 + 28282 0.7 0.148459
Target:  5'- uCAGUGGgGUGaCCGGCgCUGCggGAGCUGc -3'
miRNA:   3'- -GUCGUCgCGC-GGCCG-GAUGa-CUCGAU- -5'
23152 3' -60.7 NC_005178.1 + 24900 0.73 0.086301
Target:  5'- -cGcCAGCGCGCCGGCC-GCcGAGCc- -3'
miRNA:   3'- guC-GUCGCGCGGCCGGaUGaCUCGau -5'
23152 3' -60.7 NC_005178.1 + 14082 0.74 0.07682
Target:  5'- gAGCAGCGgGCCGGCUUcgcGCcGGGCg- -3'
miRNA:   3'- gUCGUCGCgCGGCCGGA---UGaCUCGau -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.