miRNA display CGI


Results 1 - 20 of 77 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
28178 5' -56.3 NC_005887.1 + 26487 0.67 0.564103
Target:  5'- aCGGgcAUGCCGGCcgcuuccUCGACGAuuucCUCGAg -3'
miRNA:   3'- gGCU--UACGGCCGc------AGCUGCUc---GAGCU- -5'
28178 5' -56.3 NC_005887.1 + 3158 0.68 0.490414
Target:  5'- aCCuGAUGCCGcGCcUCGACaAGUUCGGg -3'
miRNA:   3'- -GGcUUACGGC-CGcAGCUGcUCGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 41491 0.68 0.521516
Target:  5'- cCCGcAUGgcaCCGGCucgaacggcaaGUCGACGGuGCUCGGc -3'
miRNA:   3'- -GGCuUAC---GGCCG-----------CAGCUGCU-CGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 8462 0.67 0.541607
Target:  5'- aUCGAGcGcCCGGCGcaaccgcUCGGCGAcgacacgugGCUCGAg -3'
miRNA:   3'- -GGCUUaC-GGCCGC-------AGCUGCU---------CGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 13389 0.67 0.542672
Target:  5'- gCUGAagGCCGGCG-CGGCGGaCgUCGGc -3'
miRNA:   3'- -GGCUuaCGGCCGCaGCUGCUcG-AGCU- -5'
28178 5' -56.3 NC_005887.1 + 36306 0.67 0.542672
Target:  5'- gCCGAucUGCgCGGCgGUCGACGccgcgcaCUCGAu -3'
miRNA:   3'- -GGCUu-ACG-GCCG-CAGCUGCuc-----GAGCU- -5'
28178 5' -56.3 NC_005887.1 + 41204 0.67 0.549075
Target:  5'- uCCGAc--CCGcGCGUCGucgugcccgugacCGAGCUCGAc -3'
miRNA:   3'- -GGCUuacGGC-CGCAGCu------------GCUCGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 26918 0.67 0.553356
Target:  5'- cCCGAGUcGCUGGCcgccGUCGACGAacccuGCUgGc -3'
miRNA:   3'- -GGCUUA-CGGCCG----CAGCUGCU-----CGAgCu -5'
28178 5' -56.3 NC_005887.1 + 10469 0.67 0.553356
Target:  5'- aCGGuuacgGCCGGCG-CGAUcacGCUCGAc -3'
miRNA:   3'- gGCUua---CGGCCGCaGCUGcu-CGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 19500 0.68 0.480237
Target:  5'- cCCG-AUGCCGGCGagcaUCGGCGcAGg-CGAc -3'
miRNA:   3'- -GGCuUACGGCCGC----AGCUGC-UCgaGCU- -5'
28178 5' -56.3 NC_005887.1 + 13913 0.68 0.479225
Target:  5'- uUCGug-GCacguacgCGGUGUCGACGGGgUCGAa -3'
miRNA:   3'- -GGCuuaCG-------GCCGCAGCUGCUCgAGCU- -5'
28178 5' -56.3 NC_005887.1 + 40546 0.69 0.454277
Target:  5'- aCGAcgGuCUGGCGcucgcgcacgaguucUCGGCGcGCUCGAg -3'
miRNA:   3'- gGCUuaC-GGCCGC---------------AGCUGCuCGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 16960 0.76 0.175592
Target:  5'- aCCGcgcGgCGGCaauGUCGGCGAGCUCGAc -3'
miRNA:   3'- -GGCuuaCgGCCG---CAGCUGCUCGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 4901 0.74 0.241184
Target:  5'- gCCGAggGCCGGCG-CGAgGuGUUCGu -3'
miRNA:   3'- -GGCUuaCGGCCGCaGCUgCuCGAGCu -5'
28178 5' -56.3 NC_005887.1 + 5619 0.74 0.243689
Target:  5'- -aGGAUGCgGGCGaCGcggugaaggcgauacGCGAGCUCGAa -3'
miRNA:   3'- ggCUUACGgCCGCaGC---------------UGCUCGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 35057 0.73 0.267211
Target:  5'- gCGAGgucgcUGCCGuCGUCGGCGGGCgCGAc -3'
miRNA:   3'- gGCUU-----ACGGCcGCAGCUGCUCGaGCU- -5'
28178 5' -56.3 NC_005887.1 + 30158 0.71 0.333969
Target:  5'- gCCG-AUGCCGGCGUCGA--AGUcgCGGa -3'
miRNA:   3'- -GGCuUACGGCCGCAGCUgcUCGa-GCU- -5'
28178 5' -56.3 NC_005887.1 + 40782 0.71 0.370795
Target:  5'- gCCGA--GCCGGCGgucgagguucguggCGGCGAcgcgccGCUCGAc -3'
miRNA:   3'- -GGCUuaCGGCCGCa-------------GCUGCU------CGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 31270 0.7 0.402922
Target:  5'- cUCGucgGCC-GCGUCGAucgccucguCGAGCUCGAc -3'
miRNA:   3'- -GGCuuaCGGcCGCAGCU---------GCUCGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 29388 0.69 0.421516
Target:  5'- cUCGGcccAUGCCGGCG-CGgucGCGAucagGCUCGAc -3'
miRNA:   3'- -GGCU---UACGGCCGCaGC---UGCU----CGAGCU- -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.