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 + 47644 0.84 0.153491
Target:  5'- cCGAcUUCGGCGUCGAGGUCggCGACg -3'
miRNA:   3'- uGCUaGAGCCGUAGCUUCAGaaGCUG- -5'
16273 3' -50.8 NC_004084.1 + 44819 0.66 0.938916
Target:  5'- cCGGUCggugaCGGUAUCGAgcugaccgaGGUCggaUCGGCc -3'
miRNA:   3'- uGCUAGa----GCCGUAGCU---------UCAGa--AGCUG- -5'
16273 3' -50.8 NC_004084.1 + 56450 0.66 0.92787
Target:  5'- gACGAUCUcgaCGGCGcgcUCucGGUCUUCcguGACg -3'
miRNA:   3'- -UGCUAGA---GCCGU---AGcuUCAGAAG---CUG- -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 + 21895 0.66 0.918197
Target:  5'- cGCGA--UCGGCGUCucGGUCggccuccucaucgagUUCGACg -3'
miRNA:   3'- -UGCUagAGCCGUAGcuUCAG---------------AAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 53319 0.67 0.909127
Target:  5'- gGCGAUCgcgGGC-UCGGuucacGUCUUCGAg -3'
miRNA:   3'- -UGCUAGag-CCGuAGCUu----CAGAAGCUg -5'
16273 3' -50.8 NC_004084.1 + 48709 0.67 0.909127
Target:  5'- cCGGcaUCGGCGUCGGccaacucaccgcGGUCUcCGGCg -3'
miRNA:   3'- uGCUagAGCCGUAGCU------------UCAGAaGCUG- -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 + 9594 0.68 0.86404
Target:  5'- aGCGAUCauUCGGC-UCGuacgugcgcGUCUUCGAg -3'
miRNA:   3'- -UGCUAG--AGCCGuAGCuu-------CAGAAGCUg -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 + 11876 0.79 0.278959
Target:  5'- gACGAUC-CGGaCGUCGAAGaCUUCGAUg -3'
miRNA:   3'- -UGCUAGaGCC-GUAGCUUCaGAAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 49515 0.71 0.705333
Target:  5'- uCGAUCcggUCGGCAuccacggacgaUCGAGGUgaUCGGCg -3'
miRNA:   3'- uGCUAG---AGCCGU-----------AGCUUCAgaAGCUG- -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 + 30975 0.69 0.790173
Target:  5'- aGCGAg--CGGUGUCGAAGUCgauuccUGACg -3'
miRNA:   3'- -UGCUagaGCCGUAGCUUCAGaa----GCUG- -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 + 24061 0.68 0.83799
Target:  5'- cGCGGUUgCGGCGUCcaucaugccgcGAAGugcgcUCUUCGACu -3'
miRNA:   3'- -UGCUAGaGCCGUAG-----------CUUC-----AGAAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 32019 0.68 0.846913
Target:  5'- gACGGaagggCUCGGguUCGAGGaccUCUaCGACg -3'
miRNA:   3'- -UGCUa----GAGCCguAGCUUC---AGAaGCUG- -5'
16273 3' -50.8 NC_004084.1 + 46528 1.11 0.002422
Target:  5'- gACGAUCUCGGCAUCGAAGUCUUCGACg -3'
miRNA:   3'- -UGCUAGAGCCGUAGCUUCAGAAGCUG- -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.