miRNA display CGI


Results 1 - 20 of 24 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
13997 5' -51.8 NC_003521.1 + 89088 0.66 0.997142
Target:  5'- aCGCGCUUCUUcuuucgcaucacccgCCAGGacgaggaccacGUCUUCAGCc -3'
miRNA:   3'- cGUGCGAGGAA---------------GGUCCa----------CAGAAGUUG- -5'
13997 5' -51.8 NC_003521.1 + 209713 0.66 0.99695
Target:  5'- -gGCGCUCCaggUCCgAGGagGUCgugcgCAGCg -3'
miRNA:   3'- cgUGCGAGGa--AGG-UCCa-CAGaa---GUUG- -5'
13997 5' -51.8 NC_003521.1 + 173031 0.66 0.995355
Target:  5'- aGCACGCgcucgCCggugggcagcugggUCUGGGUGUUggcuucgUUCAGCa -3'
miRNA:   3'- -CGUGCGa----GGa-------------AGGUCCACAG-------AAGUUG- -5'
13997 5' -51.8 NC_003521.1 + 224869 0.66 0.994375
Target:  5'- aGCGCGCcagCUcgUCCAGGUG-CUUggcgcaCAGCa -3'
miRNA:   3'- -CGUGCGa--GGa-AGGUCCACaGAA------GUUG- -5'
13997 5' -51.8 NC_003521.1 + 163223 0.66 0.994293
Target:  5'- gGCGCGCccggugacgugggUUCggCCAcGGcgGUCUUCAACg -3'
miRNA:   3'- -CGUGCG-------------AGGaaGGU-CCa-CAGAAGUUG- -5'
13997 5' -51.8 NC_003521.1 + 163429 0.67 0.993513
Target:  5'- uGC-CGCUgCCUaCCAGGgugccaccGUCUUCGAg -3'
miRNA:   3'- -CGuGCGA-GGAaGGUCCa-------CAGAAGUUg -5'
13997 5' -51.8 NC_003521.1 + 59909 0.67 0.993513
Target:  5'- cGCACGCUCCcucaaagccUUCCug--GUCUcCGACg -3'
miRNA:   3'- -CGUGCGAGG---------AAGGuccaCAGAaGUUG- -5'
13997 5' -51.8 NC_003521.1 + 160257 0.67 0.992548
Target:  5'- cGCGCGCUUCUcCCGGGUuGcCUgguggUAGCc -3'
miRNA:   3'- -CGUGCGAGGAaGGUCCA-CaGAa----GUUG- -5'
13997 5' -51.8 NC_003521.1 + 169171 0.67 0.992548
Target:  5'- uGCGcCGCUCCaaCUcGGccucgGUCUUCAACa -3'
miRNA:   3'- -CGU-GCGAGGaaGGuCCa----CAGAAGUUG- -5'
13997 5' -51.8 NC_003521.1 + 50305 0.67 0.988953
Target:  5'- cGCAccuCGCUCCUcagCCAGGgaggcagcggGUCcUCGGCc -3'
miRNA:   3'- -CGU---GCGAGGAa--GGUCCa---------CAGaAGUUG- -5'
13997 5' -51.8 NC_003521.1 + 146979 0.67 0.988813
Target:  5'- aGCACGaCcUCUUCCAGGguuucuaUGUCUUCuuccuGCu -3'
miRNA:   3'- -CGUGC-GaGGAAGGUCC-------ACAGAAGu----UG- -5'
13997 5' -51.8 NC_003521.1 + 211199 0.68 0.986058
Target:  5'- uCGCGUUCC-UCCGGGggcggguuggugaagGUCUuggUCAGCa -3'
miRNA:   3'- cGUGCGAGGaAGGUCCa--------------CAGA---AGUUG- -5'
13997 5' -51.8 NC_003521.1 + 230499 0.68 0.985722
Target:  5'- cGCACGCUUauuauagUUUCCGGGUGUUg----- -3'
miRNA:   3'- -CGUGCGAG-------GAAGGUCCACAGaaguug -5'
13997 5' -51.8 NC_003521.1 + 16200 0.68 0.980131
Target:  5'- uGCugGC-CCUUCgAGGUGg---CGGCg -3'
miRNA:   3'- -CGugCGaGGAAGgUCCACagaaGUUG- -5'
13997 5' -51.8 NC_003521.1 + 64619 0.7 0.963636
Target:  5'- aCACGCUUCggCCGcagGUCUUCGACg -3'
miRNA:   3'- cGUGCGAGGaaGGUccaCAGAAGUUG- -5'
13997 5' -51.8 NC_003521.1 + 12127 0.7 0.960162
Target:  5'- cCGCGCUCCUUC-GGGUG-CggCGGCc -3'
miRNA:   3'- cGUGCGAGGAAGgUCCACaGaaGUUG- -5'
13997 5' -51.8 NC_003521.1 + 3909 0.7 0.960162
Target:  5'- gGCACGCUCUUUCUucAGGcGUUgccaagCGACg -3'
miRNA:   3'- -CGUGCGAGGAAGG--UCCaCAGaa----GUUG- -5'
13997 5' -51.8 NC_003521.1 + 104309 0.7 0.948387
Target:  5'- -uGCGCUCCUUCUcccgcgacaccgAGGUGg--UCAACc -3'
miRNA:   3'- cgUGCGAGGAAGG------------UCCACagaAGUUG- -5'
13997 5' -51.8 NC_003521.1 + 135584 0.71 0.943999
Target:  5'- cGCACGCgUCC-UCCgAGGaUGUCUUCc-- -3'
miRNA:   3'- -CGUGCG-AGGaAGG-UCC-ACAGAAGuug -5'
13997 5' -51.8 NC_003521.1 + 127552 0.71 0.939374
Target:  5'- aGCACGCcgUCggCCAGGUGcUCggcgaUCAGCg -3'
miRNA:   3'- -CGUGCGa-GGaaGGUCCAC-AGa----AGUUG- -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.