miRNA display CGI


Results 1 - 20 of 23 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
19953 3' -51.4 NC_004687.1 + 115048 0.66 0.989686
Target:  5'- aGCACUuugcucCCGUuucuucaCUUGGUGUGGGUg--- -3'
miRNA:   3'- -CGUGGu-----GGCG-------GAACUACACCCAaaag -5'
19953 3' -51.4 NC_004687.1 + 76844 0.66 0.984938
Target:  5'- cGCGCCGCCgcugaaaGCCUUGGUc-GGGUc--- -3'
miRNA:   3'- -CGUGGUGG-------CGGAACUAcaCCCAaaag -5'
19953 3' -51.4 NC_004687.1 + 71595 0.67 0.983231
Target:  5'- uGCACCACCGac--GgcGUGGGg--UCg -3'
miRNA:   3'- -CGUGGUGGCggaaCuaCACCCaaaAG- -5'
19953 3' -51.4 NC_004687.1 + 117609 0.67 0.983231
Target:  5'- uGCAUCGCgGCCUgGAUGaucucgGGGUa--- -3'
miRNA:   3'- -CGUGGUGgCGGAaCUACa-----CCCAaaag -5'
19953 3' -51.4 NC_004687.1 + 103804 0.68 0.970985
Target:  5'- gGC-CCGCCGCCgcaccgUGugcuUGUGGGa---- -3'
miRNA:   3'- -CGuGGUGGCGGa-----ACu---ACACCCaaaag -5'
19953 3' -51.4 NC_004687.1 + 52349 0.68 0.970985
Target:  5'- aGCACCACCaagGCCUccagUGGccgGUGGGa---- -3'
miRNA:   3'- -CGUGGUGG---CGGA----ACUa--CACCCaaaag -5'
19953 3' -51.4 NC_004687.1 + 117076 0.68 0.970985
Target:  5'- cGCACCGgCGCCg-GAUGUGGc----- -3'
miRNA:   3'- -CGUGGUgGCGGaaCUACACCcaaaag -5'
19953 3' -51.4 NC_004687.1 + 66094 0.68 0.970985
Target:  5'- cCACCGCCaCCUUGGUGaagguggacUGGGUc--- -3'
miRNA:   3'- cGUGGUGGcGGAACUAC---------ACCCAaaag -5'
19953 3' -51.4 NC_004687.1 + 46029 0.68 0.970985
Target:  5'- gGCGCCGCCGCgCgcGAUGUaGGUc--- -3'
miRNA:   3'- -CGUGGUGGCG-GaaCUACAcCCAaaag -5'
19953 3' -51.4 NC_004687.1 + 111339 0.68 0.967917
Target:  5'- cCACCGCCGCCcggcUUGGccUGGGUggaaUCg -3'
miRNA:   3'- cGUGGUGGCGG----AACUacACCCAaa--AG- -5'
19953 3' -51.4 NC_004687.1 + 153735 0.68 0.967917
Target:  5'- gGCACCACCGUggaCUggcucUGcgGUGGGg---- -3'
miRNA:   3'- -CGUGGUGGCG---GA-----ACuaCACCCaaaag -5'
19953 3' -51.4 NC_004687.1 + 51318 0.68 0.967917
Target:  5'- cGCGCgUGCCGUCUgcagaucguUGAUGUGGGccaUCa -3'
miRNA:   3'- -CGUG-GUGGCGGA---------ACUACACCCaaaAG- -5'
19953 3' -51.4 NC_004687.1 + 86433 0.68 0.964285
Target:  5'- gGCGCCccgACCGCCUcGGUGUacaccccGGGgg-UCu -3'
miRNA:   3'- -CGUGG---UGGCGGAaCUACA-------CCCaaaAG- -5'
19953 3' -51.4 NC_004687.1 + 42768 0.68 0.961106
Target:  5'- aGCACCagacgACCGUCggggUGAUGUGuGGccUUCu -3'
miRNA:   3'- -CGUGG-----UGGCGGa---ACUACAC-CCaaAAG- -5'
19953 3' -51.4 NC_004687.1 + 9214 0.68 0.961106
Target:  5'- -gACCGCCGCaccGAUGUGGuagUUCg -3'
miRNA:   3'- cgUGGUGGCGgaaCUACACCcaaAAG- -5'
19953 3' -51.4 NC_004687.1 + 75080 0.68 0.961106
Target:  5'- cGCACCACCGCCg----GUGGc----- -3'
miRNA:   3'- -CGUGGUGGCGGaacuaCACCcaaaag -5'
19953 3' -51.4 NC_004687.1 + 140550 0.69 0.939882
Target:  5'- uCACCGCCaGCCUgggcgUGAgccgUGUGGGUa--- -3'
miRNA:   3'- cGUGGUGG-CGGA-----ACU----ACACCCAaaag -5'
19953 3' -51.4 NC_004687.1 + 67239 0.69 0.934373
Target:  5'- -gGCCggugucgaucgagACCGCCggGGUGUGGGUg--- -3'
miRNA:   3'- cgUGG-------------UGGCGGaaCUACACCCAaaag -5'
19953 3' -51.4 NC_004687.1 + 110740 0.71 0.878506
Target:  5'- uGCGCCGCCGCgUUGucgGcggGGGUUg-- -3'
miRNA:   3'- -CGUGGUGGCGgAACua-Ca--CCCAAaag -5'
19953 3' -51.4 NC_004687.1 + 3392 0.72 0.838813
Target:  5'- gGCAUCACCgGCCUUGAccuUGGGg--UCg -3'
miRNA:   3'- -CGUGGUGG-CGGAACUac-ACCCaaaAG- -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.