miRNA display CGI


Results 1 - 20 of 22 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
11878 5' -58 NC_003266.2 + 26417 0.66 0.494575
Target:  5'- gGGugGAGUaGUCcuGGG-CGGCGcCGGCGg -3'
miRNA:   3'- -CCugCUCG-CGG--UCCaGUCGCuGCUGC- -5'
11878 5' -58 NC_003266.2 + 24956 0.66 0.493544
Target:  5'- cGGCGGGgggcacuCGCggaAGGUCAGCGGC-ACGa -3'
miRNA:   3'- cCUGCUC-------GCGg--UCCAGUCGCUGcUGC- -5'
11878 5' -58 NC_003266.2 + 13845 0.66 0.493544
Target:  5'- ---aGAGCGUgaugcagCAGGcaauggCGGCGGCGGCGg -3'
miRNA:   3'- ccugCUCGCG-------GUCCa-----GUCGCUGCUGC- -5'
11878 5' -58 NC_003266.2 + 15686 0.66 0.474156
Target:  5'- cGGugGAGa--CGGGcgCGGCGGCGGgGg -3'
miRNA:   3'- -CCugCUCgcgGUCCa-GUCGCUGCUgC- -5'
11878 5' -58 NC_003266.2 + 18080 0.67 0.444348
Target:  5'- aGGGCGAGCcCCcGGUCGcGCGcgggccACGGCc -3'
miRNA:   3'- -CCUGCUCGcGGuCCAGU-CGC------UGCUGc -5'
11878 5' -58 NC_003266.2 + 8366 0.67 0.410013
Target:  5'- uGGCGGGCGgaagcgguuuggcuuCCAuGGUUaaaAGCGGCGGCGn -3'
miRNA:   3'- cCUGCUCGC---------------GGU-CCAG---UCGCUGCUGC- -5'
11878 5' -58 NC_003266.2 + 25656 0.67 0.406301
Target:  5'- aGGACGAcgGUCuGG-CGGCGGCGGCu -3'
miRNA:   3'- -CCUGCUcgCGGuCCaGUCGCUGCUGc -5'
11878 5' -58 NC_003266.2 + 17020 0.67 0.406301
Target:  5'- aGGGCG-GCaGCgGGaGUugcagcugugCGGCGACGACGg -3'
miRNA:   3'- -CCUGCuCG-CGgUC-CA----------GUCGCUGCUGC- -5'
11878 5' -58 NC_003266.2 + 9373 0.68 0.379145
Target:  5'- aGGACGGGCGCgccGUCAccgagaccauGCGACGcCGg -3'
miRNA:   3'- -CCUGCUCGCGgucCAGU----------CGCUGCuGC- -5'
11878 5' -58 NC_003266.2 + 8188 0.68 0.370367
Target:  5'- aGACGcuGCggaGUCAGGUCAGUGggcaGCGGCGg -3'
miRNA:   3'- cCUGCu-CG---CGGUCCAGUCGC----UGCUGC- -5'
11878 5' -58 NC_003266.2 + 15690 0.68 0.361729
Target:  5'- cGGuACGcccGCGCCaAGaGcCGGCGGCGGCGc -3'
miRNA:   3'- -CC-UGCu--CGCGG-UC-CaGUCGCUGCUGC- -5'
11878 5' -58 NC_003266.2 + 16015 0.68 0.35155
Target:  5'- gGGGCGGGUGCgCAcGGgcacgcgcacacCGGUGGCGGCGu -3'
miRNA:   3'- -CCUGCUCGCG-GU-CCa-----------GUCGCUGCUGC- -5'
11878 5' -58 NC_003266.2 + 16981 0.69 0.328597
Target:  5'- cGGCGGGUGgu-GGUCuuGCGGCGGCGg -3'
miRNA:   3'- cCUGCUCGCgguCCAGu-CGCUGCUGC- -5'
11878 5' -58 NC_003266.2 + 7525 0.69 0.312892
Target:  5'- gGGcccuCGAGCaGCaCGGGcUCAGCGAcccCGACGa -3'
miRNA:   3'- -CCu---GCUCG-CG-GUCC-AGUCGCU---GCUGC- -5'
11878 5' -58 NC_003266.2 + 14759 0.71 0.230596
Target:  5'- gGGGCGAuaauuuugcuaGCGCCGcagCAGUGGCGGCGg -3'
miRNA:   3'- -CCUGCU-----------CGCGGUccaGUCGCUGCUGC- -5'
11878 5' -58 NC_003266.2 + 13229 0.71 0.227002
Target:  5'- -aACGAGCGCCccuuguggaagaaagAGGgCAGCGACcGGCGc -3'
miRNA:   3'- ccUGCUCGCGG---------------UCCaGUCGCUG-CUGC- -5'
11878 5' -58 NC_003266.2 + 11013 0.72 0.213098
Target:  5'- -cGCGGGUGCCGcucCGGCGACGACGc -3'
miRNA:   3'- ccUGCUCGCGGUccaGUCGCUGCUGC- -5'
11878 5' -58 NC_003266.2 + 23398 0.73 0.186474
Target:  5'- cGGugGGGgcagaugGCgAGGUUGGCGACGAUGg -3'
miRNA:   3'- -CCugCUCg------CGgUCCAGUCGCUGCUGC- -5'
11878 5' -58 NC_003266.2 + 24230 0.73 0.171943
Target:  5'- aGGGCaAGC-CCGuGGUCAGCGACGAg- -3'
miRNA:   3'- -CCUGcUCGcGGU-CCAGUCGCUGCUgc -5'
11878 5' -58 NC_003266.2 + 8411 0.76 0.101394
Target:  5'- aGGACGcGCGCCGGGcggUAGgGGCGGCu -3'
miRNA:   3'- -CCUGCuCGCGGUCCa--GUCgCUGCUGc -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.