miRNA display CGI


Results 1 - 20 of 21 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
25058 5' -60.3 NC_005336.1 + 9641 0.66 0.729786
Target:  5'- gCGGCCuGGUGCGcGAGcgcUGCgUCCGa- -3'
miRNA:   3'- -GCCGGuCCACGCcCUC---AUGgAGGUga -5'
25058 5' -60.3 NC_005336.1 + 35235 0.66 0.7006
Target:  5'- aGGCCGuGGUGa-GGAugACCUCCAUg -3'
miRNA:   3'- gCCGGU-CCACgcCCUcaUGGAGGUGa -5'
25058 5' -60.3 NC_005336.1 + 123745 0.66 0.7006
Target:  5'- gGGCauggGGGgacgGCGGGAGaggugGCCUgCGCUc -3'
miRNA:   3'- gCCGg---UCCa---CGCCCUCa----UGGAgGUGA- -5'
25058 5' -60.3 NC_005336.1 + 7341 0.66 0.690749
Target:  5'- uGGCaauaAGG-GUGGGAGUaaaaACUUCUACa -3'
miRNA:   3'- gCCGg---UCCaCGCCCUCA----UGGAGGUGa -5'
25058 5' -60.3 NC_005336.1 + 117218 0.66 0.680852
Target:  5'- gCGGCgCAGGUGCcGGAGcauggcgGCgaCCACg -3'
miRNA:   3'- -GCCG-GUCCACGcCCUCa------UGgaGGUGa -5'
25058 5' -60.3 NC_005336.1 + 125408 0.66 0.670917
Target:  5'- uCGGCCGcGGcGuCGuGGAGUGCCgcuucCCGCa -3'
miRNA:   3'- -GCCGGU-CCaC-GC-CCUCAUGGa----GGUGa -5'
25058 5' -60.3 NC_005336.1 + 13100 0.67 0.660952
Target:  5'- -cGCCAGcGUGCaGGAcacGgccaGCCUCCACUg -3'
miRNA:   3'- gcCGGUC-CACGcCCU---Ca---UGGAGGUGA- -5'
25058 5' -60.3 NC_005336.1 + 87427 0.67 0.650964
Target:  5'- gCGGCCGGGgaucuuggGCGGcucGUGCUucUCCGCg -3'
miRNA:   3'- -GCCGGUCCa-------CGCCcu-CAUGG--AGGUGa -5'
25058 5' -60.3 NC_005336.1 + 66999 0.68 0.600962
Target:  5'- gGGCguGGUguGCGGGuuGUugCUCUGCg -3'
miRNA:   3'- gCCGguCCA--CGCCCu-CAugGAGGUGa -5'
25058 5' -60.3 NC_005336.1 + 139680 0.68 0.581066
Target:  5'- aGGUCucgcGGcUGCGGG-GUgccGCCUCCGCg -3'
miRNA:   3'- gCCGGu---CC-ACGCCCuCA---UGGAGGUGa -5'
25058 5' -60.3 NC_005336.1 + 139680 0.68 0.581066
Target:  5'- aGGUCucgcGGcUGCGGG-GUgccGCCUCCGCg -3'
miRNA:   3'- gCCGGu---CC-ACGCCCuCA---UGGAGGUGa -5'
25058 5' -60.3 NC_005336.1 + 82938 0.68 0.571167
Target:  5'- uGGUaCAGGUcccgcGCGGaGAGcGCCUCCGCc -3'
miRNA:   3'- gCCG-GUCCA-----CGCC-CUCaUGGAGGUGa -5'
25058 5' -60.3 NC_005336.1 + 25139 0.69 0.532042
Target:  5'- uGGUgGGGgagugGCGGuGGGUGCCguuUCCGCa -3'
miRNA:   3'- gCCGgUCCa----CGCC-CUCAUGG---AGGUGa -5'
25058 5' -60.3 NC_005336.1 + 74674 0.69 0.532042
Target:  5'- gCGGCCAGGguggacaGCGGcGGGUccacgagcacgAgCUCCACUu -3'
miRNA:   3'- -GCCGGUCCa------CGCC-CUCA-----------UgGAGGUGA- -5'
25058 5' -60.3 NC_005336.1 + 73719 0.69 0.522406
Target:  5'- gCGGUCA--UGCGcGAGUACCUCUACa -3'
miRNA:   3'- -GCCGGUccACGCcCUCAUGGAGGUGa -5'
25058 5' -60.3 NC_005336.1 + 14735 0.7 0.484588
Target:  5'- uGGCCugggcgaugAGGUGCGuGAGUuccuCCUCCAUg -3'
miRNA:   3'- gCCGG---------UCCACGCcCUCAu---GGAGGUGa -5'
25058 5' -60.3 NC_005336.1 + 14367 0.71 0.429606
Target:  5'- gCGGUCcgcgacgAGGUGCGGGAagcgGCaCUCCACg -3'
miRNA:   3'- -GCCGG-------UCCACGCCCUca--UG-GAGGUGa -5'
25058 5' -60.3 NC_005336.1 + 103649 0.76 0.209978
Target:  5'- uGGUCgAGGUGCaGGAGUucuCCUCCGCg -3'
miRNA:   3'- gCCGG-UCCACGcCCUCAu--GGAGGUGa -5'
25058 5' -60.3 NC_005336.1 + 97581 0.77 0.185935
Target:  5'- gCGGCCGcGGUGCGcGGGUACCgCCGCg -3'
miRNA:   3'- -GCCGGU-CCACGCcCUCAUGGaGGUGa -5'
25058 5' -60.3 NC_005336.1 + 20281 0.77 0.177017
Target:  5'- aGGCUGGGgcUGCGGGAGUGCggCCGCg -3'
miRNA:   3'- gCCGGUCC--ACGCCCUCAUGgaGGUGa -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.