miRNA display CGI


Results 1 - 15 of 15 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
30890 3' -53.8 NC_006552.1 + 24257 0.66 0.879492
Target:  5'- aUCGGUugugguCGCCGGCA-CUACcGGcaGCGGc -3'
miRNA:   3'- -GGCCAu-----GCGGUCGUaGAUGcUC--UGCC- -5'
30890 3' -53.8 NC_006552.1 + 65091 0.66 0.856002
Target:  5'- gCCGccgGCGCCGGCAa--ACGAaGCGGg -3'
miRNA:   3'- -GGCca-UGCGGUCGUagaUGCUcUGCC- -5'
30890 3' -53.8 NC_006552.1 + 7893 0.66 0.855183
Target:  5'- aCGGUggcgccaggaaacGCGCCAcGCAUCUGCucGGCc- -3'
miRNA:   3'- gGCCA-------------UGCGGU-CGUAGAUGcuCUGcc -5'
30890 3' -53.8 NC_006552.1 + 45326 0.67 0.839207
Target:  5'- gCGGUACGCCuuGCAguu-CGGGucuuuCGGg -3'
miRNA:   3'- gGCCAUGCGGu-CGUagauGCUCu----GCC- -5'
30890 3' -53.8 NC_006552.1 + 59400 0.67 0.821577
Target:  5'- -gGGcGCGgCAGCGUCagGCGGuGGCGGc -3'
miRNA:   3'- ggCCaUGCgGUCGUAGa-UGCU-CUGCC- -5'
30890 3' -53.8 NC_006552.1 + 20049 0.67 0.821577
Target:  5'- cUCGGcaUACGCCuGCAcgUCUGCGcgguAGGCGu -3'
miRNA:   3'- -GGCC--AUGCGGuCGU--AGAUGC----UCUGCc -5'
30890 3' -53.8 NC_006552.1 + 4119 0.67 0.821577
Target:  5'- gUGGU-UGCCAGCcgCUGCGGuaguaGCGGu -3'
miRNA:   3'- gGCCAuGCGGUCGuaGAUGCUc----UGCC- -5'
30890 3' -53.8 NC_006552.1 + 31443 0.68 0.754373
Target:  5'- aCCGG---GCCAGCgAUCcgggACGAcGACGGg -3'
miRNA:   3'- -GGCCaugCGGUCG-UAGa---UGCU-CUGCC- -5'
30890 3' -53.8 NC_006552.1 + 3252 0.68 0.744209
Target:  5'- gCCGcaGUGCGCCGGagGUCguuCGaAGACGGc -3'
miRNA:   3'- -GGC--CAUGCGGUCg-UAGau-GC-UCUGCC- -5'
30890 3' -53.8 NC_006552.1 + 51982 0.69 0.723566
Target:  5'- aCUGGcACGCCAGCA---GCGAGagcuugccGCGGc -3'
miRNA:   3'- -GGCCaUGCGGUCGUagaUGCUC--------UGCC- -5'
30890 3' -53.8 NC_006552.1 + 35099 0.7 0.638349
Target:  5'- gCUGGUGcCGCuCGGCAUCUugcCGgucAGGCGGu -3'
miRNA:   3'- -GGCCAU-GCG-GUCGUAGAu--GC---UCUGCC- -5'
30890 3' -53.8 NC_006552.1 + 59518 0.71 0.616793
Target:  5'- aCGGUucuugaGCCGGCAUgUG-GGGACGGu -3'
miRNA:   3'- gGCCAug----CGGUCGUAgAUgCUCUGCC- -5'
30890 3' -53.8 NC_006552.1 + 20283 0.71 0.616793
Target:  5'- gCGGUagaccuGCGCCAGCGUCU-CGaAGGCc- -3'
miRNA:   3'- gGCCA------UGCGGUCGUAGAuGC-UCUGcc -5'
30890 3' -53.8 NC_006552.1 + 63802 0.71 0.573902
Target:  5'- aCCGGUGCGCUAGCuUCgGCGcccAGGCc- -3'
miRNA:   3'- -GGCCAUGCGGUCGuAGaUGC---UCUGcc -5'
30890 3' -53.8 NC_006552.1 + 10703 0.72 0.542185
Target:  5'- gCGGUGCcaGCCGGUAUCUcgACGA-ACGGc -3'
miRNA:   3'- gGCCAUG--CGGUCGUAGA--UGCUcUGCC- -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.