miRNA display CGI


Results 1 - 20 of 110 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
23254 3' -59.6 NC_005259.1 + 848 0.7 0.328809
Target:  5'- gUCGcuGCGCa--GGCCgAGUGCGAGCGUg -3'
miRNA:   3'- -GGCu-CGUGgaaCCGG-UCGCGCUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 1319 0.69 0.401914
Target:  5'- gUGAGCGCCaUGGUCgauuucgAGauCGAGCGCa -3'
miRNA:   3'- gGCUCGUGGaACCGG-------UCgcGCUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 2183 0.66 0.560995
Target:  5'- gCCGAGguCaugGGCCGcuacggcaaggugcuGCGCaccGAGCGCc -3'
miRNA:   3'- -GGCUCguGgaaCCGGU---------------CGCG---CUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 2954 0.66 0.567195
Target:  5'- gCGAG-ACCcUGGCCAccgcGCGCGAaauccucuacGCGUc -3'
miRNA:   3'- gGCUCgUGGaACCGGU----CGCGCU----------CGCG- -5'
23254 3' -59.6 NC_005259.1 + 3310 0.69 0.402792
Target:  5'- gCGAGCGCUgc-GUCGaCGUGAGCGCc -3'
miRNA:   3'- gGCUCGUGGaacCGGUcGCGCUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 3868 0.67 0.476769
Target:  5'- gUCGAGCGCCUcGaGCCcaccccgcAGCGCGAcaucGuCGCc -3'
miRNA:   3'- -GGCUCGUGGAaC-CGG--------UCGCGCU----C-GCG- -5'
23254 3' -59.6 NC_005259.1 + 4291 0.71 0.292255
Target:  5'- aCGAGCacggACCggcGGCCcuGCGaUGAGCGCg -3'
miRNA:   3'- gGCUCG----UGGaa-CCGGu-CGC-GCUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 4600 0.67 0.486491
Target:  5'- aCCGccauaGGCACgCUgucgGGCCgguGGCGCGAGUu- -3'
miRNA:   3'- -GGC-----UCGUG-GAa---CCGG---UCGCGCUCGcg -5'
23254 3' -59.6 NC_005259.1 + 5452 0.71 0.281248
Target:  5'- gCCGAcagaucgcaugagcaGCACCaaUGGCCGGUGCaauAGCGCc -3'
miRNA:   3'- -GGCU---------------CGUGGa-ACCGGUCGCGc--UCGCG- -5'
23254 3' -59.6 NC_005259.1 + 5704 0.66 0.526263
Target:  5'- cUCGuGcCGCCaaGGCCAGCGCcggacGGCGg -3'
miRNA:   3'- -GGCuC-GUGGaaCCGGUCGCGc----UCGCg -5'
23254 3' -59.6 NC_005259.1 + 6522 0.66 0.556873
Target:  5'- gCCGuGCGCgCgacaaccGGCCucGGgGCGAGCGg -3'
miRNA:   3'- -GGCuCGUG-Gaa-----CCGG--UCgCGCUCGCg -5'
23254 3' -59.6 NC_005259.1 + 7029 0.67 0.50621
Target:  5'- gCCGAGCGCCccGGCgGgguuuuucguuGCGCGAGa-- -3'
miRNA:   3'- -GGCUCGUGGaaCCGgU-----------CGCGCUCgcg -5'
23254 3' -59.6 NC_005259.1 + 7236 0.66 0.556873
Target:  5'- aCGAcgGCAgCCgc-GCCGGUGuCGAGUGCg -3'
miRNA:   3'- gGCU--CGU-GGaacCGGUCGC-GCUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 7646 0.66 0.577564
Target:  5'- gCCGAGUucgACCgccGUCGuCGUGAGCGCc -3'
miRNA:   3'- -GGCUCG---UGGaacCGGUcGCGCUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 8407 0.66 0.526263
Target:  5'- gCCGGGcCACCUcgcUGGCgAGCauGCGA-UGCu -3'
miRNA:   3'- -GGCUC-GUGGA---ACCGgUCG--CGCUcGCG- -5'
23254 3' -59.6 NC_005259.1 + 8760 0.81 0.058798
Target:  5'- gUCGAgGC-CCUUGGCCAGCGCG-GCGg -3'
miRNA:   3'- -GGCU-CGuGGAACCGGUCGCGCuCGCg -5'
23254 3' -59.6 NC_005259.1 + 9609 0.66 0.577564
Target:  5'- -aGAGCACCgUGGCaucgaacaccGCGCcGGUGCc -3'
miRNA:   3'- ggCUCGUGGaACCGgu--------CGCGcUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 9707 0.71 0.306483
Target:  5'- aCUGGGCACCguccucgGGCCGGU-CGAGCu- -3'
miRNA:   3'- -GGCUCGUGGaa-----CCGGUCGcGCUCGcg -5'
23254 3' -59.6 NC_005259.1 + 9970 0.67 0.476769
Target:  5'- cCCGAccaccGCACCggucgaggUGGCCAGC-CGGGgacugaucCGCg -3'
miRNA:   3'- -GGCU-----CGUGGa-------ACCGGUCGcGCUC--------GCG- -5'
23254 3' -59.6 NC_005259.1 + 10638 0.73 0.21762
Target:  5'- gCCGAaCAgCUUGGCCucGCGguCGAGCGCc -3'
miRNA:   3'- -GGCUcGUgGAACCGGu-CGC--GCUCGCG- -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.