miRNA display CGI


Results 1 - 16 of 16 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
18167 3' -51.2 NC_004680.1 + 15993 0.66 0.93307
Target:  5'- uGGUCaGuGAUcgUGCACGCAucgacaccggUGUCCUc -3'
miRNA:   3'- gCCAGaC-CUAuuGCGUGUGU----------ACAGGG- -5'
18167 3' -51.2 NC_004680.1 + 33567 0.66 0.93307
Target:  5'- gCGGUgUGGAUGAUGUgcuGCGCcacGUCUg -3'
miRNA:   3'- -GCCAgACCUAUUGCG---UGUGua-CAGGg -5'
18167 3' -51.2 NC_004680.1 + 57532 0.66 0.908787
Target:  5'- uGGUUUGGGUGGCGgCGCGguUGUa-- -3'
miRNA:   3'- gCCAGACCUAUUGC-GUGUguACAggg -5'
18167 3' -51.2 NC_004680.1 + 50647 0.67 0.894951
Target:  5'- cCGaUCUGac-AGCGCACACAUGUUUCc -3'
miRNA:   3'- -GCcAGACcuaUUGCGUGUGUACAGGG- -5'
18167 3' -51.2 NC_004680.1 + 13307 0.67 0.88762
Target:  5'- aGGUgUGGA--AUGC-CGCGgccgGUCCCc -3'
miRNA:   3'- gCCAgACCUauUGCGuGUGUa---CAGGG- -5'
18167 3' -51.2 NC_004680.1 + 57042 0.67 0.88762
Target:  5'- -cGUCUGGAgguuCGCAagagaACAUG-CCCu -3'
miRNA:   3'- gcCAGACCUauu-GCGUg----UGUACaGGG- -5'
18167 3' -51.2 NC_004680.1 + 5175 0.67 0.886873
Target:  5'- aCGGUCUGG---GCGguCcacuccuccaggaGCAUGUCCg -3'
miRNA:   3'- -GCCAGACCuauUGCguG-------------UGUACAGGg -5'
18167 3' -51.2 NC_004680.1 + 11685 0.67 0.880021
Target:  5'- aCGGUUugaUGGGUGuccuugGCGCGCaggGCGUGUucggCCCg -3'
miRNA:   3'- -GCCAG---ACCUAU------UGCGUG---UGUACA----GGG- -5'
18167 3' -51.2 NC_004680.1 + 50157 0.67 0.880021
Target:  5'- gGGUCUcGGGUcgcgguCGCACcggGCcgGUCCUa -3'
miRNA:   3'- gCCAGA-CCUAuu----GCGUG---UGuaCAGGG- -5'
18167 3' -51.2 NC_004680.1 + 22042 0.67 0.879246
Target:  5'- uCGGUCUGGuguuCGCGCcguauaucgcgauGCGUGgUCCg -3'
miRNA:   3'- -GCCAGACCuauuGCGUG-------------UGUAC-AGGg -5'
18167 3' -51.2 NC_004680.1 + 4873 0.68 0.847058
Target:  5'- cCGGUCggcGGAUu-CGCGCAUcucuucuucgGUGUCgCCa -3'
miRNA:   3'- -GCCAGa--CCUAuuGCGUGUG----------UACAG-GG- -5'
18167 3' -51.2 NC_004680.1 + 36612 0.68 0.829148
Target:  5'- aGG-CUGa--GGCGCACACcgGUUCCg -3'
miRNA:   3'- gCCaGACcuaUUGCGUGUGuaCAGGG- -5'
18167 3' -51.2 NC_004680.1 + 44836 0.69 0.819867
Target:  5'- gGGaCUGGcugucgGACgGgGCGCGUGUCCCc -3'
miRNA:   3'- gCCaGACCua----UUG-CgUGUGUACAGGG- -5'
18167 3' -51.2 NC_004680.1 + 42137 0.69 0.790846
Target:  5'- aGGUCU-----GCGCAUACGUG-CCCa -3'
miRNA:   3'- gCCAGAccuauUGCGUGUGUACaGGG- -5'
18167 3' -51.2 NC_004680.1 + 54573 0.7 0.769599
Target:  5'- aGGUacaguuuUUGGugAGCGCuAUACGUGUCCCu -3'
miRNA:   3'- gCCA-------GACCuaUUGCG-UGUGUACAGGG- -5'
18167 3' -51.2 NC_004680.1 + 4356 1.14 0.001529
Target:  5'- gCGGUCUGGAUAACGCACACAUGUCCCg -3'
miRNA:   3'- -GCCAGACCUAUUGCGUGUGUACAGGG- -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.