miRNA display CGI


Results 1 - 20 of 28 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
2965 3' -58.5 NC_001493.1 + 2695 0.68 0.686823
Target:  5'- uGAGGGGUgGGAgggccguUCU-CCCaaGGACCu -3'
miRNA:   3'- gCUCCUCGgCCU-------AGAuGGGgaCCUGG- -5'
2965 3' -58.5 NC_001493.1 + 9114 0.66 0.792365
Target:  5'- -cGGGAGCCgcgGGGUC-AUCCCcGcGACCg -3'
miRNA:   3'- gcUCCUCGG---CCUAGaUGGGGaC-CUGG- -5'
2965 3' -58.5 NC_001493.1 + 16266 0.68 0.687816
Target:  5'- uCGAGGAGUCucgagcGGUCgaGCCCCgGGACg -3'
miRNA:   3'- -GCUCCUCGGc-----CUAGa-UGGGGaCCUGg -5'
2965 3' -58.5 NC_001493.1 + 19531 0.68 0.697715
Target:  5'- aCGAGaGAGCUGGccagcacgcUCUACCUCUuGGCCc -3'
miRNA:   3'- -GCUC-CUCGGCCu--------AGAUGGGGAcCUGG- -5'
2965 3' -58.5 NC_001493.1 + 22916 0.72 0.444712
Target:  5'- uCGA--AGCCGGGUCgUACCCCgUGGAaCCu -3'
miRNA:   3'- -GCUccUCGGCCUAG-AUGGGG-ACCU-GG- -5'
2965 3' -58.5 NC_001493.1 + 23454 0.72 0.481157
Target:  5'- uCGAGGcGCC-GAUCaACaCCUGGACCa -3'
miRNA:   3'- -GCUCCuCGGcCUAGaUGgGGACCUGG- -5'
2965 3' -58.5 NC_001493.1 + 33063 0.68 0.697715
Target:  5'- uGAGGAGUgugagauacUGGGUCgucACCCUcaGGGCCa -3'
miRNA:   3'- gCUCCUCG---------GCCUAGa--UGGGGa-CCUGG- -5'
2965 3' -58.5 NC_001493.1 + 44198 0.76 0.263237
Target:  5'- aGAGGGGCCGGGUauuucggGCCCUgggGGAgCCg -3'
miRNA:   3'- gCUCCUCGGCCUAga-----UGGGGa--CCU-GG- -5'
2965 3' -58.5 NC_001493.1 + 45792 0.68 0.697715
Target:  5'- -cGGGAGCUGGAgUCcaugcagACCgCaCUGGACCu -3'
miRNA:   3'- gcUCCUCGGCCU-AGa------UGG-G-GACCUGG- -5'
2965 3' -58.5 NC_001493.1 + 46762 0.66 0.801206
Target:  5'- uCGAGGAagacccuguguaGCUGGcgCagggugauCUCCUGGACCc -3'
miRNA:   3'- -GCUCCU------------CGGCCuaGau------GGGGACCUGG- -5'
2965 3' -58.5 NC_001493.1 + 50372 0.66 0.809899
Target:  5'- gCGGGGAGuCCGGGaugaUACCg--GGACCc -3'
miRNA:   3'- -GCUCCUC-GGCCUag--AUGGggaCCUGG- -5'
2965 3' -58.5 NC_001493.1 + 59602 0.67 0.765042
Target:  5'- --cGGAGacCCGGuugCUACCCCgucGACCa -3'
miRNA:   3'- gcuCCUC--GGCCua-GAUGGGGac-CUGG- -5'
2965 3' -58.5 NC_001493.1 + 73517 0.69 0.607703
Target:  5'- -cGGGAGCCuccuGGAUCUACUCUUcaaGGACg -3'
miRNA:   3'- gcUCCUCGG----CCUAGAUGGGGA---CCUGg -5'
2965 3' -58.5 NC_001493.1 + 81245 0.67 0.746244
Target:  5'- uCGAGGAGgucgUGGGUCUGCUCgUguaacaGGGCCg -3'
miRNA:   3'- -GCUCCUCg---GCCUAGAUGGGgA------CCUGG- -5'
2965 3' -58.5 NC_001493.1 + 86915 0.67 0.755695
Target:  5'- gGAGGAccaguucacacgGuuGGAgaacacacUCUACUCCaUGGGCCu -3'
miRNA:   3'- gCUCCU------------CggCCU--------AGAUGGGG-ACCUGG- -5'
2965 3' -58.5 NC_001493.1 + 87869 1.04 0.003759
Target:  5'- aCGAGGAGCCGGAUCUACCCCcGGACCu -3'
miRNA:   3'- -GCUCCUCGGCCUAGAUGGGGaCCUGG- -5'
2965 3' -58.5 NC_001493.1 + 87923 1.04 0.003759
Target:  5'- aCGAGGAGCCGGAUCUACCCCcGGACCu -3'
miRNA:   3'- -GCUCCUCGGCCUAGAUGGGGaCCUGG- -5'
2965 3' -58.5 NC_001493.1 + 87965 1.05 0.003371
Target:  5'- aCGAGGAGCCGGAUCUACCCCgGGACCu -3'
miRNA:   3'- -GCUCCUCGGCCUAGAUGGGGaCCUGG- -5'
2965 3' -58.5 NC_001493.1 + 88007 1.08 0.002008
Target:  5'- aCGAGGAGCUGGAUCUACCCCUGGACCu -3'
miRNA:   3'- -GCUCCUCGGCCUAGAUGGGGACCUGG- -5'
2965 3' -58.5 NC_001493.1 + 88049 1.12 0.001102
Target:  5'- aCGAGGAGCCGGAUCUACCCCUGGACCu -3'
miRNA:   3'- -GCUCCUCGGCCUAGAUGGGGACCUGG- -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.