miRNA display CGI


Results 1 - 18 of 18 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
12392 3' -50.5 NC_003324.1 + 38350 0.66 0.914213
Target:  5'- gGGCaccGGGGc--GGCGCUGGUC-GCCg -3'
miRNA:   3'- -UCGaa-CUCUuucUCGCGACCAGuUGG- -5'
12392 3' -50.5 NC_003324.1 + 41515 0.66 0.93253
Target:  5'- cGGUUUGGGAccucuacGAGgGCUGGgcccaGACCc -3'
miRNA:   3'- -UCGAACUCUuu-----CUCgCGACCag---UUGG- -5'
12392 3' -50.5 NC_003324.1 + 32102 0.67 0.869687
Target:  5'- cGGCUcgucgccggUGAGGccGAGUGCcuUGGUCuccGCCu -3'
miRNA:   3'- -UCGA---------ACUCUuuCUCGCG--ACCAGu--UGG- -5'
12392 3' -50.5 NC_003324.1 + 50262 0.67 0.869687
Target:  5'- cGCgucGAGAAAGAGaaugaugcgcCGCcGGUCGACg -3'
miRNA:   3'- uCGaa-CUCUUUCUC----------GCGaCCAGUUGg -5'
12392 3' -50.5 NC_003324.1 + 53680 0.67 0.893233
Target:  5'- gAGCUUGAuacggcGAAAcaGGCGCUGGacgCAugCg -3'
miRNA:   3'- -UCGAACU------CUUUc-UCGCGACCa--GUugG- -5'
12392 3' -50.5 NC_003324.1 + 10747 0.67 0.885662
Target:  5'- cGCcgGAGAA--AGCGC-GGUUGACCa -3'
miRNA:   3'- uCGaaCUCUUucUCGCGaCCAGUUGG- -5'
12392 3' -50.5 NC_003324.1 + 20847 0.67 0.885662
Target:  5'- cGGCggugGAcAAGGAGCGCaUGGcCGACa -3'
miRNA:   3'- -UCGaa--CUcUUUCUCGCG-ACCaGUUGg -5'
12392 3' -50.5 NC_003324.1 + 25907 0.67 0.885662
Target:  5'- cAGCUUGAGGAcgaaaccGGGCGCgcaGG-CGugCg -3'
miRNA:   3'- -UCGAACUCUUu------CUCGCGa--CCaGUugG- -5'
12392 3' -50.5 NC_003324.1 + 55259 0.67 0.885662
Target:  5'- uGGCgUGGGcGAGAGCccauccggcCUGuGUCAGCCa -3'
miRNA:   3'- -UCGaACUCuUUCUCGc--------GAC-CAGUUGG- -5'
12392 3' -50.5 NC_003324.1 + 27201 0.67 0.877811
Target:  5'- gGGCUcaaGAGcGAGAgcgaccGCGCUGGUguGCUg -3'
miRNA:   3'- -UCGAa--CUCuUUCU------CGCGACCAguUGG- -5'
12392 3' -50.5 NC_003324.1 + 20646 0.68 0.852646
Target:  5'- uGGCUUcGGgcGGAGUGCU--UCGACCa -3'
miRNA:   3'- -UCGAAcUCuuUCUCGCGAccAGUUGG- -5'
12392 3' -50.5 NC_003324.1 + 42266 0.69 0.775326
Target:  5'- --gUUGAGAccuacAGGGCGCgGGUCGGCa -3'
miRNA:   3'- ucgAACUCUu----UCUCGCGaCCAGUUGg -5'
12392 3' -50.5 NC_003324.1 + 28959 0.69 0.815648
Target:  5'- uGCUUGAGca--AGCGCUcGUUGACCg -3'
miRNA:   3'- uCGAACUCuuucUCGCGAcCAGUUGG- -5'
12392 3' -50.5 NC_003324.1 + 53300 0.7 0.764815
Target:  5'- cGGCUUGAGAAAGAaCuaUcGGUC-GCCg -3'
miRNA:   3'- -UCGAACUCUUUCUcGcgA-CCAGuUGG- -5'
12392 3' -50.5 NC_003324.1 + 37217 0.7 0.721425
Target:  5'- cGGCgggGAGGAAGAGCgaGCUGcUCAaauACCu -3'
miRNA:   3'- -UCGaa-CUCUUUCUCG--CGACcAGU---UGG- -5'
12392 3' -50.5 NC_003324.1 + 50507 0.74 0.51817
Target:  5'- cAGCUUuuGAAAcAGCGCUGGcacgCAGCCa -3'
miRNA:   3'- -UCGAAcuCUUUcUCGCGACCa---GUUGG- -5'
12392 3' -50.5 NC_003324.1 + 26128 0.77 0.376501
Target:  5'- cGCUUGAGcuAGAGCGCcGGcaGACCg -3'
miRNA:   3'- uCGAACUCuuUCUCGCGaCCagUUGG- -5'
12392 3' -50.5 NC_003324.1 + 45345 1.14 0.001363
Target:  5'- gAGCUUGAGAAAGAGCGCUGGUCAACCg -3'
miRNA:   3'- -UCGAACUCUUUCUCGCGACCAGUUGG- -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.