miRNA display CGI


Results 1 - 13 of 13 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
1615 3' -56.6 NC_001347.2 + 155318 0.66 0.954814
Target:  5'- -gCCGGGCUGGucggGGGAagaaacGUGGUGugGg -3'
miRNA:   3'- caGGUCUGGCCua--CUCU------CACCGCugC- -5'
1615 3' -56.6 NC_001347.2 + 116758 0.66 0.950952
Target:  5'- -gCCAGGCCGGAa-AGAGcuGCGACa -3'
miRNA:   3'- caGGUCUGGCCUacUCUCacCGCUGc -5'
1615 3' -56.6 NC_001347.2 + 170747 0.66 0.946875
Target:  5'- --aCGGACaGGAcGAGAGcccgGGCGGCGu -3'
miRNA:   3'- cagGUCUGgCCUaCUCUCa---CCGCUGC- -5'
1615 3' -56.6 NC_001347.2 + 135966 0.66 0.946875
Target:  5'- -gCCGGGCCgucGGAUGGGGG-GGuCGAgCGg -3'
miRNA:   3'- caGGUCUGG---CCUACUCUCaCC-GCU-GC- -5'
1615 3' -56.6 NC_001347.2 + 173644 0.66 0.946875
Target:  5'- gGUCuCGGcguCUGGGagGAG-GUGGCGGCGg -3'
miRNA:   3'- -CAG-GUCu--GGCCUa-CUCuCACCGCUGC- -5'
1615 3' -56.6 NC_001347.2 + 82697 0.68 0.887495
Target:  5'- gGUCCcGAacaGGGUGuacGGGUGGUGGCGg -3'
miRNA:   3'- -CAGGuCUgg-CCUACu--CUCACCGCUGC- -5'
1615 3' -56.6 NC_001347.2 + 229654 0.69 0.854997
Target:  5'- uGUCgCGGgcguguggcggguguGCCGGcgGGGuGUGGUGGCGg -3'
miRNA:   3'- -CAG-GUC---------------UGGCCuaCUCuCACCGCUGC- -5'
1615 3' -56.6 NC_001347.2 + 175 0.69 0.854997
Target:  5'- uGUCgCGGgcguguggcggguguGCCGGcgGGGuGUGGUGGCGg -3'
miRNA:   3'- -CAG-GUC---------------UGGCCuaCUCuCACCGCUGC- -5'
1615 3' -56.6 NC_001347.2 + 36675 0.69 0.846618
Target:  5'- -cUCAGACCGGGcuccggcggguggccUGAGcacgccgaggcccAGUGGCGGCa -3'
miRNA:   3'- caGGUCUGGCCU---------------ACUC-------------UCACCGCUGc -5'
1615 3' -56.6 NC_001347.2 + 135859 0.7 0.785883
Target:  5'- -cCCGGGCCGGAgcccgGGGAGgagcGGgGugGg -3'
miRNA:   3'- caGGUCUGGCCUa----CUCUCa---CCgCugC- -5'
1615 3' -56.6 NC_001347.2 + 173711 0.72 0.662862
Target:  5'- uUCCGGuACgCGGAaaaUGAGcagcGGUGGCGGCGg -3'
miRNA:   3'- cAGGUC-UG-GCCU---ACUC----UCACCGCUGC- -5'
1615 3' -56.6 NC_001347.2 + 112644 0.73 0.633277
Target:  5'- --aUAGGCCGG-UGAuGGUGGCGGCGg -3'
miRNA:   3'- cagGUCUGGCCuACUcUCACCGCUGC- -5'
1615 3' -56.6 NC_001347.2 + 145495 1.08 0.005058
Target:  5'- uGUCCAGACCGGAUGAGAGUGGCGACGu -3'
miRNA:   3'- -CAGGUCUGGCCUACUCUCACCGCUGC- -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.