miRNA display CGI


Results 1 - 20 of 69 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
18789 3' -57.3 NC_004683.1 + 928 0.66 0.634909
Target:  5'- gGCGUGCCcgGAUGGccagcgcgUGAUCuucaaGgCGCGCa -3'
miRNA:   3'- -UGCGCGG--CUACC--------ACUAGua---CgGCGCG- -5'
18789 3' -57.3 NC_004683.1 + 39168 0.66 0.634909
Target:  5'- gGCGCGCuCGuau-UGGUCA-GCCGCGa -3'
miRNA:   3'- -UGCGCG-GCuaccACUAGUaCGGCGCg -5'
18789 3' -57.3 NC_004683.1 + 41472 0.66 0.633826
Target:  5'- cACGCcgccaGCCGAcgGGUacucgucGAUCGUGUCGCa- -3'
miRNA:   3'- -UGCG-----CGGCUa-CCA-------CUAGUACGGCGcg -5'
18789 3' -57.3 NC_004683.1 + 26336 0.66 0.624081
Target:  5'- gGCGCuGUCGgcGGUGcgag-GCCGCGUu -3'
miRNA:   3'- -UGCG-CGGCuaCCACuaguaCGGCGCG- -5'
18789 3' -57.3 NC_004683.1 + 30875 0.66 0.624081
Target:  5'- gACGCgGCCGGuuccagcaucUGGUGGUCAgaaUGgCGUGa -3'
miRNA:   3'- -UGCG-CGGCU----------ACCACUAGU---ACgGCGCg -5'
18789 3' -57.3 NC_004683.1 + 23152 0.66 0.624081
Target:  5'- aGCGCGCCGGUGagcacCAgGCCGCcgaGCa -3'
miRNA:   3'- -UGCGCGGCUACcacuaGUaCGGCG---CG- -5'
18789 3' -57.3 NC_004683.1 + 44538 0.66 0.620834
Target:  5'- aACGaCGCCGAuUGGUucaaguuccucgccGAUUcgGCCgGCGUc -3'
miRNA:   3'- -UGC-GCGGCU-ACCA--------------CUAGuaCGG-CGCG- -5'
18789 3' -57.3 NC_004683.1 + 44678 0.66 0.61326
Target:  5'- gACGCGgUgguugaucugcaGGUGGUGcaGUCAUGaCGCGCc -3'
miRNA:   3'- -UGCGCgG------------CUACCAC--UAGUACgGCGCG- -5'
18789 3' -57.3 NC_004683.1 + 48234 0.66 0.610017
Target:  5'- cCGUGCCGcuUGGUGAgCAccuggaaugugugcUGUgGCGCg -3'
miRNA:   3'- uGCGCGGCu-ACCACUaGU--------------ACGgCGCG- -5'
18789 3' -57.3 NC_004683.1 + 10354 0.66 0.602455
Target:  5'- aGCGCGCCGAgaaGGcGuUC--GCCGaCGCg -3'
miRNA:   3'- -UGCGCGGCUa--CCaCuAGuaCGGC-GCG- -5'
18789 3' -57.3 NC_004683.1 + 23689 0.66 0.602455
Target:  5'- cCGCGCCGAcgGGUucUCGacguuccGCCGCGg -3'
miRNA:   3'- uGCGCGGCUa-CCAcuAGUa------CGGCGCg -5'
18789 3' -57.3 NC_004683.1 + 6814 0.66 0.602455
Target:  5'- uACGCGCuCGAUGuGUcgacgcuggaccGGUCGcGCCGCa- -3'
miRNA:   3'- -UGCGCG-GCUAC-CA------------CUAGUaCGGCGcg -5'
18789 3' -57.3 NC_004683.1 + 40539 0.66 0.602455
Target:  5'- cACGCGCCGAcacucugcGGUG--CAUGCCacGgGCg -3'
miRNA:   3'- -UGCGCGGCUa-------CCACuaGUACGG--CgCG- -5'
18789 3' -57.3 NC_004683.1 + 45573 0.66 0.591675
Target:  5'- gGCGacgaGCCGGUcGGUGcggggCGcGUCGCGCg -3'
miRNA:   3'- -UGCg---CGGCUA-CCACua---GUaCGGCGCG- -5'
18789 3' -57.3 NC_004683.1 + 10514 0.66 0.591675
Target:  5'- uCGCGCCGAggaGGaGAagcUCAagagGCUGCGUg -3'
miRNA:   3'- uGCGCGGCUa--CCaCU---AGUa---CGGCGCG- -5'
18789 3' -57.3 NC_004683.1 + 48255 0.67 0.580928
Target:  5'- aGCGaCGCCGccGGcGAgug-GCUGCGCa -3'
miRNA:   3'- -UGC-GCGGCuaCCaCUaguaCGGCGCG- -5'
18789 3' -57.3 NC_004683.1 + 46930 0.67 0.580928
Target:  5'- gACGUGCaCGAcGGUGGagcgGCaCGCGCu -3'
miRNA:   3'- -UGCGCG-GCUaCCACUaguaCG-GCGCG- -5'
18789 3' -57.3 NC_004683.1 + 16182 0.67 0.559564
Target:  5'- cGCaCGCCGgcGGUuucgacGAUgAcGCCGCGCa -3'
miRNA:   3'- -UGcGCGGCuaCCA------CUAgUaCGGCGCG- -5'
18789 3' -57.3 NC_004683.1 + 55717 0.67 0.548963
Target:  5'- gAUGCGUgGccUGGUGGU--UGUCGCGCa -3'
miRNA:   3'- -UGCGCGgCu-ACCACUAguACGGCGCG- -5'
18789 3' -57.3 NC_004683.1 + 38883 0.67 0.548963
Target:  5'- aACGCGacucCCGAUGaGcUGGggAUGCCGCGg -3'
miRNA:   3'- -UGCGC----GGCUAC-C-ACUagUACGGCGCg -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.