miRNA display CGI


Results 1 - 19 of 19 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
11285 3' -59.8 NC_003083.1 + 88219 0.66 0.714655
Target:  5'- aCGACCGG-CGCGgcUCCAaauuuuuauauUGGCcCCGUCu -3'
miRNA:   3'- -GCUGGUCgGCGC--AGGU-----------GCCGuGGUAG- -5'
11285 3' -59.8 NC_003083.1 + 4634 0.66 0.714655
Target:  5'- uGACCAccGCUGCGUUUgucaauCGGCACUAa- -3'
miRNA:   3'- gCUGGU--CGGCGCAGGu-----GCCGUGGUag -5'
11285 3' -59.8 NC_003083.1 + 90989 0.66 0.714655
Target:  5'- uGuCCAGCCGCGcCCguacAUGGCgacACCAa- -3'
miRNA:   3'- gCuGGUCGGCGCaGG----UGCCG---UGGUag -5'
11285 3' -59.8 NC_003083.1 + 24198 0.66 0.714655
Target:  5'- uGGCCaAGCCGauugCCAacGCACCGUCg -3'
miRNA:   3'- gCUGG-UCGGCgca-GGUgcCGUGGUAG- -5'
11285 3' -59.8 NC_003083.1 + 35738 0.66 0.70477
Target:  5'- uGAUguGCUuuucgGCGUCCACGuuGCCGUa -3'
miRNA:   3'- gCUGguCGG-----CGCAGGUGCcgUGGUAg -5'
11285 3' -59.8 NC_003083.1 + 88067 0.66 0.687834
Target:  5'- gGGCCaauauaaaaauuuggAGCCGCG-CCggucguuacccucGCGGCACCGc- -3'
miRNA:   3'- gCUGG---------------UCGGCGCaGG-------------UGCCGUGGUag -5'
11285 3' -59.8 NC_003083.1 + 24858 0.66 0.684831
Target:  5'- uGGCCGGCCGCGUUgcaaCACuuGGUAgCAa- -3'
miRNA:   3'- gCUGGUCGGCGCAG----GUG--CCGUgGUag -5'
11285 3' -59.8 NC_003083.1 + 65480 0.66 0.674793
Target:  5'- gCGAaaaCAGCgGCGUaaGCGGUAUCAUg -3'
miRNA:   3'- -GCUg--GUCGgCGCAggUGCCGUGGUAg -5'
11285 3' -59.8 NC_003083.1 + 87843 0.66 0.674793
Target:  5'- aCGACCAcGuCCGCGUCCGCcacuucguuuGCAUCggGUCg -3'
miRNA:   3'- -GCUGGU-C-GGCGCAGGUGc---------CGUGG--UAG- -5'
11285 3' -59.8 NC_003083.1 + 40021 0.66 0.671775
Target:  5'- gGGCCAGCgG-GUUCaacgauuuucaacgGCGGCACCAa- -3'
miRNA:   3'- gCUGGUCGgCgCAGG--------------UGCCGUGGUag -5'
11285 3' -59.8 NC_003083.1 + 89845 0.66 0.664721
Target:  5'- uGACU-GCCGCaUUCAUGGUgaucGCCGUCg -3'
miRNA:   3'- gCUGGuCGGCGcAGGUGCCG----UGGUAG- -5'
11285 3' -59.8 NC_003083.1 + 32146 0.66 0.664721
Target:  5'- uCGGCCAGCCGuUGgacaaACGGCGCUg-- -3'
miRNA:   3'- -GCUGGUCGGC-GCagg--UGCCGUGGuag -5'
11285 3' -59.8 NC_003083.1 + 112649 0.67 0.65159
Target:  5'- aCGAUguGCCGCGaauacgcaacguguUCCAgGGCAUUAg- -3'
miRNA:   3'- -GCUGguCGGCGC--------------AGGUgCCGUGGUag -5'
11285 3' -59.8 NC_003083.1 + 1770 0.67 0.614134
Target:  5'- ---aCAG-CGCG-CCACGGCGCCAa- -3'
miRNA:   3'- gcugGUCgGCGCaGGUGCCGUGGUag -5'
11285 3' -59.8 NC_003083.1 + 89315 0.67 0.614134
Target:  5'- -uGCCGGCCGCG-CCGCaaaucucGCugGCCGUCa -3'
miRNA:   3'- gcUGGUCGGCGCaGGUGc------CG--UGGUAG- -5'
11285 3' -59.8 NC_003083.1 + 32296 0.68 0.573854
Target:  5'- uCGGCCAgcGCCGUuuGUCCaACGGCugGCCGa- -3'
miRNA:   3'- -GCUGGU--CGGCG--CAGG-UGCCG--UGGUag -5'
11285 3' -59.8 NC_003083.1 + 38209 0.69 0.534216
Target:  5'- aGAaCAcGCgaCGUG-CCGCGGCACCAUCa -3'
miRNA:   3'- gCUgGU-CG--GCGCaGGUGCCGUGGUAG- -5'
11285 3' -59.8 NC_003083.1 + 62614 0.69 0.49559
Target:  5'- aCGACaC-GCCGgGggCCACGaGCGCCAUUa -3'
miRNA:   3'- -GCUG-GuCGGCgCa-GGUGC-CGUGGUAG- -5'
11285 3' -59.8 NC_003083.1 + 51775 1.1 0.000899
Target:  5'- gCGACCAGCCGCGUCCACGGCACCAUCg -3'
miRNA:   3'- -GCUGGUCGGCGCAGGUGCCGUGGUAG- -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.