miRNA display CGI


Results 1 - 20 of 21 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
27974 5' -56.3 NC_005886.2 + 37380 0.66 0.628893
Target:  5'- gGugUCGUcGACGcgugGC-GCGGCGCAa- -3'
miRNA:   3'- -CugAGCGaUUGCa---CGuCGCCGCGUgg -5'
27974 5' -56.3 NC_005886.2 + 46947 0.66 0.627784
Target:  5'- aACUUGCUGAUGcgaucauucgcauUGCcgaucuGGcCGGCGCGCUa -3'
miRNA:   3'- cUGAGCGAUUGC-------------ACG------UC-GCCGCGUGG- -5'
27974 5' -56.3 NC_005886.2 + 5573 0.66 0.625567
Target:  5'- ---gCGCaUAGCGUGUgggcguguguugauGGCGGCGCAg- -3'
miRNA:   3'- cugaGCG-AUUGCACG--------------UCGCCGCGUgg -5'
27974 5' -56.3 NC_005886.2 + 35218 0.66 0.617808
Target:  5'- cACgCGUUGaguuucGCGgGCGGCGuGCGCACUg -3'
miRNA:   3'- cUGaGCGAU------UGCaCGUCGC-CGCGUGG- -5'
27974 5' -56.3 NC_005886.2 + 36251 0.66 0.617808
Target:  5'- cGGCg-GCacgGGCG-GCGGCGGCgGCACg -3'
miRNA:   3'- -CUGagCGa--UUGCaCGUCGCCG-CGUGg -5'
27974 5' -56.3 NC_005886.2 + 7139 0.66 0.595687
Target:  5'- uGCUCGCgcuCG-GUGGCGGCGgAUa -3'
miRNA:   3'- cUGAGCGauuGCaCGUCGCCGCgUGg -5'
27974 5' -56.3 NC_005886.2 + 25609 0.66 0.595687
Target:  5'- cGCUCgGUUGAUGUGaCAGCGuGCauuGUGCCa -3'
miRNA:   3'- cUGAG-CGAUUGCAC-GUCGC-CG---CGUGG- -5'
27974 5' -56.3 NC_005886.2 + 44203 0.66 0.595687
Target:  5'- cGGC-CGCUuucuGCGUcgGCAcgaguuGCGGCGCAgCg -3'
miRNA:   3'- -CUGaGCGAu---UGCA--CGU------CGCCGCGUgG- -5'
27974 5' -56.3 NC_005886.2 + 5998 0.66 0.584668
Target:  5'- ---aCGUUGACau-CGGCGGCGUGCCg -3'
miRNA:   3'- cugaGCGAUUGcacGUCGCCGCGUGG- -5'
27974 5' -56.3 NC_005886.2 + 20635 0.67 0.562761
Target:  5'- aGGCgagucCGCUAACGauccucGCgauAGCGGCGCGgCa -3'
miRNA:   3'- -CUGa----GCGAUUGCa-----CG---UCGCCGCGUgG- -5'
27974 5' -56.3 NC_005886.2 + 8757 0.67 0.54108
Target:  5'- -uCUCGa--ACGUGuCGGCGuucguGCGCACCg -3'
miRNA:   3'- cuGAGCgauUGCAC-GUCGC-----CGCGUGG- -5'
27974 5' -56.3 NC_005886.2 + 21319 0.67 0.54108
Target:  5'- uGAUUUGCUGugGU--AGCGGUaCGCCg -3'
miRNA:   3'- -CUGAGCGAUugCAcgUCGCCGcGUGG- -5'
27974 5' -56.3 NC_005886.2 + 37089 0.67 0.519685
Target:  5'- gGACUCGUcGGCGUcuacuuCGGCaaGCGCGCCg -3'
miRNA:   3'- -CUGAGCGaUUGCAc-----GUCGc-CGCGUGG- -5'
27974 5' -56.3 NC_005886.2 + 19558 0.67 0.519685
Target:  5'- cGGC-CGCUGGCGUuguguacgucGCAGCGacgagcaaucGCGUACUg -3'
miRNA:   3'- -CUGaGCGAUUGCA----------CGUCGC----------CGCGUGG- -5'
27974 5' -56.3 NC_005886.2 + 24431 0.69 0.399956
Target:  5'- aACcCGUgu-UGUGCAGCGcgaGCGCGCCg -3'
miRNA:   3'- cUGaGCGauuGCACGUCGC---CGCGUGG- -5'
27974 5' -56.3 NC_005886.2 + 36873 0.7 0.381757
Target:  5'- aGCgUGUUAGCGcguUGCuGCGGCGCGCa -3'
miRNA:   3'- cUGaGCGAUUGC---ACGuCGCCGCGUGg -5'
27974 5' -56.3 NC_005886.2 + 35627 0.71 0.32254
Target:  5'- uAUUCGCc-GCGUGCGcuauGCGGCGCGgCg -3'
miRNA:   3'- cUGAGCGauUGCACGU----CGCCGCGUgG- -5'
27974 5' -56.3 NC_005886.2 + 19378 0.72 0.298594
Target:  5'- -uCUCGC-GACGUGCAGCaucuucgGGCGUuucGCCu -3'
miRNA:   3'- cuGAGCGaUUGCACGUCG-------CCGCG---UGG- -5'
27974 5' -56.3 NC_005886.2 + 13375 0.73 0.242581
Target:  5'- cGGCUUGC-AGCGUugcgagcGCGGCGGCuuucuucGCACCa -3'
miRNA:   3'- -CUGAGCGaUUGCA-------CGUCGCCG-------CGUGG- -5'
27974 5' -56.3 NC_005886.2 + 42964 0.75 0.176906
Target:  5'- cGGCUCGCgccaugaGUGCAGauuGGCGCGCUu -3'
miRNA:   3'- -CUGAGCGauug---CACGUCg--CCGCGUGG- -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.