miRNA display CGI


Results 1 - 20 of 35 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
15775 3' -57.8 NC_004065.1 + 63061 0.66 0.92587
Target:  5'- gGCGCaGUC-GCagGAGucGCCGGUCGCCg-- -3'
miRNA:   3'- -CGCG-CAGaCG--CUC--UGGUCAGCGGagu -5'
15775 3' -57.8 NC_004065.1 + 130793 0.66 0.92587
Target:  5'- -gGCGUUcGCGAGGCgGaUCGCCUg- -3'
miRNA:   3'- cgCGCAGaCGCUCUGgUcAGCGGAgu -5'
15775 3' -57.8 NC_004065.1 + 17901 0.66 0.92587
Target:  5'- cGCcCGUCga-GAGACU-GUCGCCUCc -3'
miRNA:   3'- -CGcGCAGacgCUCUGGuCAGCGGAGu -5'
15775 3' -57.8 NC_004065.1 + 59563 0.66 0.920616
Target:  5'- aGCG-GUCUGCGGcGGCagcgaAGgCGCCUCc -3'
miRNA:   3'- -CGCgCAGACGCU-CUGg----UCaGCGGAGu -5'
15775 3' -57.8 NC_004065.1 + 123765 0.66 0.920616
Target:  5'- gGUGCG-CcGCGc-GCCGGUCGCCUg- -3'
miRNA:   3'- -CGCGCaGaCGCucUGGUCAGCGGAgu -5'
15775 3' -57.8 NC_004065.1 + 109935 0.66 0.915142
Target:  5'- uCGCGUCccGgGAGGucaUgAGUCGCCUCu -3'
miRNA:   3'- cGCGCAGa-CgCUCU---GgUCAGCGGAGu -5'
15775 3' -57.8 NC_004065.1 + 124653 0.66 0.915142
Target:  5'- gGC-CGUCaGCGAGuCCGGgucCGCCgUCAg -3'
miRNA:   3'- -CGcGCAGaCGCUCuGGUCa--GCGG-AGU- -5'
15775 3' -57.8 NC_004065.1 + 146741 0.66 0.915142
Target:  5'- aGCG-GUCggccgccGCGAGGCCGGUCGaguaCUUc -3'
miRNA:   3'- -CGCgCAGa------CGCUCUGGUCAGCg---GAGu -5'
15775 3' -57.8 NC_004065.1 + 114033 0.66 0.90945
Target:  5'- gGCGCacGUCgGCG-GACgAG-CGCCUCu -3'
miRNA:   3'- -CGCG--CAGaCGCuCUGgUCaGCGGAGu -5'
15775 3' -57.8 NC_004065.1 + 165599 0.66 0.90945
Target:  5'- -aGCGUCUGCGuGGCCGcgaccaGCUUCu -3'
miRNA:   3'- cgCGCAGACGCuCUGGUcag---CGGAGu -5'
15775 3' -57.8 NC_004065.1 + 200644 0.66 0.908869
Target:  5'- cGCGC-UCgagGCGAGAUCGGcguuuuaUCGCC-CAa -3'
miRNA:   3'- -CGCGcAGa--CGCUCUGGUC-------AGCGGaGU- -5'
15775 3' -57.8 NC_004065.1 + 71487 0.66 0.903542
Target:  5'- -aGCGU--GCGAGagaugcGCCGGUCGCgCUCGc -3'
miRNA:   3'- cgCGCAgaCGCUC------UGGUCAGCG-GAGU- -5'
15775 3' -57.8 NC_004065.1 + 21570 0.66 0.903542
Target:  5'- cGUGCGUaacGCGAG-CgCAGUCGCgUUAg -3'
miRNA:   3'- -CGCGCAga-CGCUCuG-GUCAGCGgAGU- -5'
15775 3' -57.8 NC_004065.1 + 105038 0.67 0.891082
Target:  5'- aGCGCG-CUGCacGACCcG-CGCCUCu -3'
miRNA:   3'- -CGCGCaGACGcuCUGGuCaGCGGAGu -5'
15775 3' -57.8 NC_004065.1 + 99211 0.67 0.891082
Target:  5'- cGUGUGUCUcaacaGCGccGGCCAGgcgaucCGCCUCGc -3'
miRNA:   3'- -CGCGCAGA-----CGCu-CUGGUCa-----GCGGAGU- -5'
15775 3' -57.8 NC_004065.1 + 1573 0.67 0.877787
Target:  5'- gGCGUGcCUGCGAgcGACCuc-CGUCUCGc -3'
miRNA:   3'- -CGCGCaGACGCU--CUGGucaGCGGAGU- -5'
15775 3' -57.8 NC_004065.1 + 151481 0.67 0.856347
Target:  5'- gGCGCGaUCUcuCGAccuacuGGCCGGUCGUCUCc -3'
miRNA:   3'- -CGCGC-AGAc-GCU------CUGGUCAGCGGAGu -5'
15775 3' -57.8 NC_004065.1 + 164574 0.68 0.84882
Target:  5'- --aCGUcCUGCaGGGACCGGUUGCCcgUCAa -3'
miRNA:   3'- cgcGCA-GACG-CUCUGGUCAGCGG--AGU- -5'
15775 3' -57.8 NC_004065.1 + 190797 0.68 0.825182
Target:  5'- uCGCGUCUGCGAGACggUAGUgGUgaUCu -3'
miRNA:   3'- cGCGCAGACGCUCUG--GUCAgCGg-AGu -5'
15775 3' -57.8 NC_004065.1 + 29112 0.68 0.825182
Target:  5'- cGUGgGgacacUUGgGAGGCCGGUCGCC-CAg -3'
miRNA:   3'- -CGCgCa----GACgCUCUGGUCAGCGGaGU- -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.