miRNA display CGI


Results 1 - 20 of 40 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
16273 3' -50.8 NC_004084.1 + 14 0.67 0.895198
Target:  5'- -gGGUCuUCGaaGUCGAGGUCgugUCGGCc -3'
miRNA:   3'- ugCUAG-AGCcgUAGCUUCAGa--AGCUG- -5'
16273 3' -50.8 NC_004084.1 + 632 0.69 0.828839
Target:  5'- gGCGAUCUCGuCGUgGAGcUCcUCGACg -3'
miRNA:   3'- -UGCUAGAGCcGUAgCUUcAGaAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 1414 0.75 0.453248
Target:  5'- gGCGucgccauUCUCGGCGUCGccGUCcUCGGCc -3'
miRNA:   3'- -UGCu------AGAGCCGUAGCuuCAGaAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 3806 0.68 0.855599
Target:  5'- aACGGUaaCGGCGaccUCGAuccAGUCUucgUCGACg -3'
miRNA:   3'- -UGCUAgaGCCGU---AGCU---UCAGA---AGCUG- -5'
16273 3' -50.8 NC_004084.1 + 6784 0.68 0.855599
Target:  5'- -aGGUCUCGGCGgggacguucUCGAAGgcaaUCGAUg -3'
miRNA:   3'- ugCUAGAGCCGU---------AGCUUCaga-AGCUG- -5'
16273 3' -50.8 NC_004084.1 + 7181 0.67 0.887813
Target:  5'- aGCGAUC-CGGaCGUCGAg--CUgcUCGACg -3'
miRNA:   3'- -UGCUAGaGCC-GUAGCUucaGA--AGCUG- -5'
16273 3' -50.8 NC_004084.1 + 9594 0.68 0.86404
Target:  5'- aGCGAUCauUCGGC-UCGuacgugcgcGUCUUCGAg -3'
miRNA:   3'- -UGCUAG--AGCCGuAGCuu-------CAGAAGCUg -5'
16273 3' -50.8 NC_004084.1 + 11876 0.79 0.278959
Target:  5'- gACGAUC-CGGaCGUCGAAGaCUUCGAUg -3'
miRNA:   3'- -UGCUAGaGCC-GUAGCUUCaGAAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 16875 0.68 0.871421
Target:  5'- -gGAUCUCGaGCG-CGgcGUCUgcuccgaUCGACg -3'
miRNA:   3'- ugCUAGAGC-CGUaGCuuCAGA-------AGCUG- -5'
16273 3' -50.8 NC_004084.1 + 16916 0.69 0.826982
Target:  5'- gGCGAUCguggccgggugcgguUCGGCAUCGgcGggcgucgcgacgucgGGUCUUCGAg -3'
miRNA:   3'- -UGCUAG---------------AGCCGUAGC--U---------------UCAGAAGCUg -5'
16273 3' -50.8 NC_004084.1 + 18095 0.74 0.55971
Target:  5'- gACGAUCUCGGaCGUC-AGGUCgaggUCGGg -3'
miRNA:   3'- -UGCUAGAGCC-GUAGcUUCAGa---AGCUg -5'
16273 3' -50.8 NC_004084.1 + 18774 0.67 0.902304
Target:  5'- cGCGAguucCUCGGCGUCGc-GUacgaUCGACu -3'
miRNA:   3'- -UGCUa---GAGCCGUAGCuuCAga--AGCUG- -5'
16273 3' -50.8 NC_004084.1 + 21771 0.66 0.915663
Target:  5'- -gGAUCggCGGCAUCGAcGUCgg-GGCc -3'
miRNA:   3'- ugCUAGa-GCCGUAGCUuCAGaagCUG- -5'
16273 3' -50.8 NC_004084.1 + 21895 0.66 0.918197
Target:  5'- cGCGA--UCGGCGUCucGGUCggccuccucaucgagUUCGACg -3'
miRNA:   3'- -UGCUagAGCCGUAGcuUCAG---------------AAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 22156 0.7 0.769758
Target:  5'- cGCGAgcgcCUCGGCGcacUCGAGGaCgUCGACc -3'
miRNA:   3'- -UGCUa---GAGCCGU---AGCUUCaGaAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 24061 0.68 0.83799
Target:  5'- cGCGGUUgCGGCGUCcaucaugccgcGAAGugcgcUCUUCGACu -3'
miRNA:   3'- -UGCUAGaGCCGUAG-----------CUUC-----AGAAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 25200 0.69 0.828839
Target:  5'- gACGGcccgCUCGGCcgCcucuGUCUUCGGCu -3'
miRNA:   3'- -UGCUa---GAGCCGuaGcuu-CAGAAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 26254 0.68 0.86404
Target:  5'- gGCGucCUCGGCGUUGAucaucGUCUcgugCGACg -3'
miRNA:   3'- -UGCuaGAGCCGUAGCUu----CAGAa---GCUG- -5'
16273 3' -50.8 NC_004084.1 + 26895 0.66 0.921299
Target:  5'- gGCGAUCgCGGCAUCcaucgcgauagugGAGG-CggCGACu -3'
miRNA:   3'- -UGCUAGaGCCGUAG-------------CUUCaGaaGCUG- -5'
16273 3' -50.8 NC_004084.1 + 29394 0.66 0.915663
Target:  5'- aACGGUCgggCGGCcacuccuggggcGUCGcGGUUgccgUCGACg -3'
miRNA:   3'- -UGCUAGa--GCCG------------UAGCuUCAGa---AGCUG- -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.