miRNA display CGI


Results 1 - 20 of 56 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
16227 3' -56.3 NC_004065.1 + 208045 0.66 0.964536
Target:  5'- cGUGGccgUGGCGGcCCUCaCCGuccuGCCGa -3'
miRNA:   3'- cCACUa--GCCGCCuGGAG-GGUu---UGGCa -5'
16227 3' -56.3 NC_004065.1 + 176555 0.66 0.964536
Target:  5'- cGGaGAgcUCGGCGGucuugaACCUCUCGGGCaCGa -3'
miRNA:   3'- -CCaCU--AGCCGCC------UGGAGGGUUUG-GCa -5'
16227 3' -56.3 NC_004065.1 + 131875 0.66 0.964536
Target:  5'- cGGUGG-CGGCGGcgacuaucACCg-CCAGACCu- -3'
miRNA:   3'- -CCACUaGCCGCC--------UGGagGGUUUGGca -5'
16227 3' -56.3 NC_004065.1 + 213011 0.66 0.964536
Target:  5'- cGUGGUCGGgaUGGAUgUCUUAGACgGUg -3'
miRNA:   3'- cCACUAGCC--GCCUGgAGGGUUUGgCA- -5'
16227 3' -56.3 NC_004065.1 + 61168 0.66 0.9626
Target:  5'- uGGUGGagGGCGagcucaaaacuccguGACCUCCaagcAGCCGa -3'
miRNA:   3'- -CCACUagCCGC---------------CUGGAGGgu--UUGGCa -5'
16227 3' -56.3 NC_004065.1 + 68772 0.66 0.961269
Target:  5'- cGGUGc-UGGCGG-CCUUCaAGGCCGUg -3'
miRNA:   3'- -CCACuaGCCGCCuGGAGGgUUUGGCA- -5'
16227 3' -56.3 NC_004065.1 + 20162 0.66 0.961269
Target:  5'- aGUGucagccaugCGGCGGACgUCUCGGACUa- -3'
miRNA:   3'- cCACua-------GCCGCCUGgAGGGUUUGGca -5'
16227 3' -56.3 NC_004065.1 + 212187 0.66 0.961269
Target:  5'- --cGAcUCGGCGGcaaUCCCAGACCuGUg -3'
miRNA:   3'- ccaCU-AGCCGCCuggAGGGUUUGG-CA- -5'
16227 3' -56.3 NC_004065.1 + 186924 0.66 0.961269
Target:  5'- --gGAUCGGCgccgggucgcGGAUg-CCCGGACCGUc -3'
miRNA:   3'- ccaCUAGCCG----------CCUGgaGGGUUUGGCA- -5'
16227 3' -56.3 NC_004065.1 + 105767 0.66 0.957799
Target:  5'- cGGUGcgaCGGCGG-CUUCCCGcgUCGc -3'
miRNA:   3'- -CCACua-GCCGCCuGGAGGGUuuGGCa -5'
16227 3' -56.3 NC_004065.1 + 28205 0.66 0.957799
Target:  5'- cGGUGAUCGagcuGCGGACg-CCCGgcaagcaggaGACCa- -3'
miRNA:   3'- -CCACUAGC----CGCCUGgaGGGU----------UUGGca -5'
16227 3' -56.3 NC_004065.1 + 57461 0.66 0.957799
Target:  5'- ---cGUCGGCGGGCCgaUCCCGuguaaCGUg -3'
miRNA:   3'- ccacUAGCCGCCUGG--AGGGUuug--GCA- -5'
16227 3' -56.3 NC_004065.1 + 3584 0.66 0.957799
Target:  5'- cGGUcucGAUCGGCgaGGACuCUCCUGgagacGGCCGc -3'
miRNA:   3'- -CCA---CUAGCCG--CCUG-GAGGGU-----UUGGCa -5'
16227 3' -56.3 NC_004065.1 + 131257 0.66 0.956718
Target:  5'- cGUGG-CGGCGGACguucugcgcgccuuCUCCCu--CCGg -3'
miRNA:   3'- cCACUaGCCGCCUG--------------GAGGGuuuGGCa -5'
16227 3' -56.3 NC_004065.1 + 162796 0.66 0.954122
Target:  5'- cGUGAUacccGCGGGCgUCUCGAucACCGUg -3'
miRNA:   3'- cCACUAgc--CGCCUGgAGGGUU--UGGCA- -5'
16227 3' -56.3 NC_004065.1 + 103876 0.66 0.954122
Target:  5'- --cGAUCauGGCGGACUUCUCGcagcacgccGACCGc -3'
miRNA:   3'- ccaCUAG--CCGCCUGGAGGGU---------UUGGCa -5'
16227 3' -56.3 NC_004065.1 + 114734 0.66 0.950235
Target:  5'- --aGG-CGGCGGAgcCCUCCCGAuUCGg -3'
miRNA:   3'- ccaCUaGCCGCCU--GGAGGGUUuGGCa -5'
16227 3' -56.3 NC_004065.1 + 153326 0.66 0.950235
Target:  5'- cGGcgGAUCcuGGagaaGGGCCUCcCCAGGCUGa -3'
miRNA:   3'- -CCa-CUAG--CCg---CCUGGAG-GGUUUGGCa -5'
16227 3' -56.3 NC_004065.1 + 217239 0.66 0.950235
Target:  5'- cGGUaugCGGCGG-UUUCCCGAAUUGUa -3'
miRNA:   3'- -CCAcuaGCCGCCuGGAGGGUUUGGCA- -5'
16227 3' -56.3 NC_004065.1 + 79307 0.66 0.946134
Target:  5'- --cGA-CGGCcuGGGCCUCCC--ACCGg -3'
miRNA:   3'- ccaCUaGCCG--CCUGGAGGGuuUGGCa -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.