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
21229 3' -60.5 NC_004778.3 + 111096 0.66 0.686651
Target:  5'- cGCGCgaGCUgUUGGCGUCCaGCguuucaaaauAGGCGg -3'
miRNA:   3'- -CGCGg-CGAgAGCCGCAGG-CG----------UCUGUa -5'
21229 3' -60.5 NC_004778.3 + 72493 0.66 0.686651
Target:  5'- aGUGCCGCcgUCggUGGCGUUgagcgucgacgaCGCGGACGc -3'
miRNA:   3'- -CGCGGCG--AGa-GCCGCAG------------GCGUCUGUa -5'
21229 3' -60.5 NC_004778.3 + 9452 0.66 0.686651
Target:  5'- -gGCCGUcgUCUCGGCGg-CGCAGcucACAc -3'
miRNA:   3'- cgCGGCG--AGAGCCGCagGCGUC---UGUa -5'
21229 3' -60.5 NC_004778.3 + 51807 0.66 0.686651
Target:  5'- uUGUCGcCUUUCaGGCGaCCGCGGAUGUa -3'
miRNA:   3'- cGCGGC-GAGAG-CCGCaGGCGUCUGUA- -5'
21229 3' -60.5 NC_004778.3 + 72674 0.66 0.666659
Target:  5'- --uCgGCUCgUCGGCGUCCGCGucgucGACGc -3'
miRNA:   3'- cgcGgCGAG-AGCCGCAGGCGU-----CUGUa -5'
21229 3' -60.5 NC_004778.3 + 69541 0.66 0.666659
Target:  5'- uCGCCauGCUCgUCagauGCGUCCGUGGACGa -3'
miRNA:   3'- cGCGG--CGAG-AGc---CGCAGGCGUCUGUa -5'
21229 3' -60.5 NC_004778.3 + 76785 0.66 0.646557
Target:  5'- aGCgGCCGUUC-CGGcCGcCCGCuguGACAa -3'
miRNA:   3'- -CG-CGGCGAGaGCC-GCaGGCGu--CUGUa -5'
21229 3' -60.5 NC_004778.3 + 82909 0.66 0.636487
Target:  5'- aCGCCGCU-UCGGCGUCggaauuCGCGG-CGg -3'
miRNA:   3'- cGCGGCGAgAGCCGCAG------GCGUCuGUa -5'
21229 3' -60.5 NC_004778.3 + 86279 0.67 0.616342
Target:  5'- cGCGuuGaaCUCGGCGcgcaUGCGGACAa -3'
miRNA:   3'- -CGCggCgaGAGCCGCag--GCGUCUGUa -5'
21229 3' -60.5 NC_004778.3 + 26888 0.67 0.606284
Target:  5'- cGCGCUGCaggCcgCGGCGUuuGCGG-CGg -3'
miRNA:   3'- -CGCGGCGa--Ga-GCCGCAggCGUCuGUa -5'
21229 3' -60.5 NC_004778.3 + 29795 0.67 0.58623
Target:  5'- uCGCCGCgUCUCGGCGUCgacaaCGUguACAa -3'
miRNA:   3'- cGCGGCG-AGAGCCGCAG-----GCGucUGUa -5'
21229 3' -60.5 NC_004778.3 + 67774 0.67 0.576248
Target:  5'- cGCGCUGCaUUUUGGCGuuuuugUCCGCccauuGGGCGUa -3'
miRNA:   3'- -CGCGGCG-AGAGCCGC------AGGCG-----UCUGUA- -5'
21229 3' -60.5 NC_004778.3 + 2419 0.67 0.572265
Target:  5'- cGCGUCGCggUCcggaaaccugaagCGGCGuacgUCCGCGGGCGUg -3'
miRNA:   3'- -CGCGGCG--AGa------------GCCGC----AGGCGUCUGUA- -5'
21229 3' -60.5 NC_004778.3 + 85809 0.68 0.527034
Target:  5'- cGCGCCGC-CUCGGCucauuGUCUugAGACGa -3'
miRNA:   3'- -CGCGGCGaGAGCCG-----CAGGcgUCUGUa -5'
21229 3' -60.5 NC_004778.3 + 28913 0.69 0.507779
Target:  5'- gGCGCCgaaGCUCUCGGCG-CUGUuuGCGc -3'
miRNA:   3'- -CGCGG---CGAGAGCCGCaGGCGucUGUa -5'
21229 3' -60.5 NC_004778.3 + 121442 0.69 0.507779
Target:  5'- uCGCCGCcgUCGGCG-CCGCGcACAUa -3'
miRNA:   3'- cGCGGCGagAGCCGCaGGCGUcUGUA- -5'
21229 3' -60.5 NC_004778.3 + 2029 0.69 0.498263
Target:  5'- -aGCUGCUCUCGGuCGUagucggccgccaCCGCAGccGCGUu -3'
miRNA:   3'- cgCGGCGAGAGCC-GCA------------GGCGUC--UGUA- -5'
21229 3' -60.5 NC_004778.3 + 73596 0.69 0.460132
Target:  5'- gGCGCCGCg-UUGGCGUCgauuagacacacgUGCAGACc- -3'
miRNA:   3'- -CGCGGCGagAGCCGCAG-------------GCGUCUGua -5'
21229 3' -60.5 NC_004778.3 + 38114 0.71 0.39968
Target:  5'- cGCGCaCGCcgUCcGCGUCCGCAGugAa -3'
miRNA:   3'- -CGCG-GCGagAGcCGCAGGCGUCugUa -5'
21229 3' -60.5 NC_004778.3 + 83416 0.72 0.32162
Target:  5'- cGCGCCGUUC-CGcGCGUCUGCA-ACAa -3'
miRNA:   3'- -CGCGGCGAGaGC-CGCAGGCGUcUGUa -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.