miRNA display CGI


Results 1 - 20 of 56 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
12789 3' -59 NC_003387.1 + 1284 0.68 0.408473
Target:  5'- -uUCACGGUgaUGCGCCUCGACGc-- -3'
miRNA:   3'- gcAGUGCCGggGUGCGGAGCUGCuuu -5'
12789 3' -59 NC_003387.1 + 2832 0.66 0.505183
Target:  5'- uCGUCaACGGCCgCgACGCCgaCGACa--- -3'
miRNA:   3'- -GCAG-UGCCGG-GgUGCGGa-GCUGcuuu -5'
12789 3' -59 NC_003387.1 + 3362 0.7 0.301549
Target:  5'- uCGUCgACGGCaucaCCAagcugGCCUCGGCGGGc -3'
miRNA:   3'- -GCAG-UGCCGg---GGUg----CGGAGCUGCUUu -5'
12789 3' -59 NC_003387.1 + 6888 0.67 0.430647
Target:  5'- cCGUCGuggcacCGGCugccuagugcgcuauCgCCACGCCUUGACGggGg -3'
miRNA:   3'- -GCAGU------GCCG---------------G-GGUGCGGAGCUGCuuU- -5'
12789 3' -59 NC_003387.1 + 7661 0.71 0.253535
Target:  5'- ---gACGGCCCUcgACGCgCUCGGCGAc- -3'
miRNA:   3'- gcagUGCCGGGG--UGCG-GAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 8326 0.7 0.280157
Target:  5'- --cUACGGCCCgGcCGaCCUCGACGAc- -3'
miRNA:   3'- gcaGUGCCGGGgU-GC-GGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 10667 0.67 0.417626
Target:  5'- uCGaCGCGGCUgcgaCCAcggcCGCCUCGGCGGu- -3'
miRNA:   3'- -GCaGUGCCGG----GGU----GCGGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 10684 0.71 0.266578
Target:  5'- gGUCGaucuUGGCgCCCugGCgCUCGGCGAc- -3'
miRNA:   3'- gCAGU----GCCG-GGGugCG-GAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 10757 0.71 0.257392
Target:  5'- --aCACGGCCgCGaucgccgguacgaGCCUCGACGAAAu -3'
miRNA:   3'- gcaGUGCCGGgGUg------------CGGAGCUGCUUU- -5'
12789 3' -59 NC_003387.1 + 10942 0.66 0.495039
Target:  5'- gGUCGCGGCa-CGCGCC-CGGCu--- -3'
miRNA:   3'- gCAGUGCCGggGUGCGGaGCUGcuuu -5'
12789 3' -59 NC_003387.1 + 11340 0.66 0.495039
Target:  5'- gGUCGCccggcgcucGGCCUCACGC-UCGGCGu-- -3'
miRNA:   3'- gCAGUG---------CCGGGGUGCGgAGCUGCuuu -5'
12789 3' -59 NC_003387.1 + 11481 0.66 0.495039
Target:  5'- -uUCAUGGCCgacaAUGCCUCGugGGc- -3'
miRNA:   3'- gcAGUGCCGGgg--UGCGGAGCugCUuu -5'
12789 3' -59 NC_003387.1 + 12351 0.69 0.348048
Target:  5'- aCGUCGaGGCCCUugGCCcCGGCc--- -3'
miRNA:   3'- -GCAGUgCCGGGGugCGGaGCUGcuuu -5'
12789 3' -59 NC_003387.1 + 18174 0.67 0.435355
Target:  5'- aCGUCGacccgcugacgauCGGCUgCgagguGCGCCUCGGCGAc- -3'
miRNA:   3'- -GCAGU-------------GCCGGgG-----UGCGGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 18590 0.67 0.455446
Target:  5'- gCGUCAgGGUCgCC-CGCCUCGGUGGc- -3'
miRNA:   3'- -GCAGUgCCGG-GGuGCGGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 19240 0.7 0.294281
Target:  5'- gCGaUCGCGGgCgCCGacCGCCUCGGCGAc- -3'
miRNA:   3'- -GC-AGUGCCgG-GGU--GCGGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 19822 0.68 0.372291
Target:  5'- uGUC-CGGCaCCCGCGggucgaaucaaucUCUCGACGAc- -3'
miRNA:   3'- gCAGuGCCG-GGGUGC-------------GGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 20349 0.68 0.373147
Target:  5'- uGUCGgcCaGCCCC-CGCCUCGuGCGggGg -3'
miRNA:   3'- gCAGU--GcCGGGGuGCGGAGC-UGCuuU- -5'
12789 3' -59 NC_003387.1 + 20449 0.7 0.280157
Target:  5'- -cUCGCGcCCCCACGCCUUGuCGGc- -3'
miRNA:   3'- gcAGUGCcGGGGUGCGGAGCuGCUuu -5'
12789 3' -59 NC_003387.1 + 21710 0.68 0.407565
Target:  5'- aG-CGCGG-CCCGCGCCgaccuggUCGugGAAAu -3'
miRNA:   3'- gCaGUGCCgGGGUGCGG-------AGCugCUUU- -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.