miRNA display CGI


Results 1 - 20 of 49 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
19202 3' -53.8 NC_004684.1 + 66908 0.66 0.855813
Target:  5'- uUGUCgGuGCUGC-CGACcUCGCUGg -3'
miRNA:   3'- gACAGgCuUGACGcGUUGcAGCGACg -5'
19202 3' -53.8 NC_004684.1 + 64753 0.66 0.829898
Target:  5'- gCUGgCCGAGCUgGUGCcaGGCGUCggucugGCUGUc -3'
miRNA:   3'- -GACaGGCUUGA-CGCG--UUGCAG------CGACG- -5'
19202 3' -53.8 NC_004684.1 + 63831 0.68 0.742159
Target:  5'- -gGUgCGGAUgGCGCGGCGcaCGCUGUc -3'
miRNA:   3'- gaCAgGCUUGaCGCGUUGCa-GCGACG- -5'
19202 3' -53.8 NC_004684.1 + 63789 0.68 0.721169
Target:  5'- gUGUUCGGcgGCccagUGCGCGACGUacuccacgucccCGCUGUg -3'
miRNA:   3'- gACAGGCU--UG----ACGCGUUGCA------------GCGACG- -5'
19202 3' -53.8 NC_004684.1 + 63512 0.71 0.558491
Target:  5'- aUGUCUGAccaggccuuggcACUGCGCAGCGgCG-UGCc -3'
miRNA:   3'- gACAGGCU------------UGACGCGUUGCaGCgACG- -5'
19202 3' -53.8 NC_004684.1 + 62585 0.71 0.558491
Target:  5'- uUGUCCucGAuCUGCGCGccggucaugGCGUCGC-GCa -3'
miRNA:   3'- gACAGG--CUuGACGCGU---------UGCAGCGaCG- -5'
19202 3' -53.8 NC_004684.1 + 59689 0.74 0.398313
Target:  5'- cCUGcgCCGAGCUGCGCGggguGCGggugCGCauccUGCg -3'
miRNA:   3'- -GACa-GGCUUGACGCGU----UGCa---GCG----ACG- -5'
19202 3' -53.8 NC_004684.1 + 59376 0.7 0.623657
Target:  5'- gUGUCCugGAACcGCccgGCGGCacaGUCGCUGCa -3'
miRNA:   3'- gACAGG--CUUGaCG---CGUUG---CAGCGACG- -5'
19202 3' -53.8 NC_004684.1 + 57939 0.7 0.634596
Target:  5'- uUG-CCGAccgcCUGCGguGC-UCGCUGCg -3'
miRNA:   3'- gACaGGCUu---GACGCguUGcAGCGACG- -5'
19202 3' -53.8 NC_004684.1 + 57097 0.68 0.752495
Target:  5'- -gGUgCGGGCgaccucugGCGCGacaccgGCGUCGCUGg -3'
miRNA:   3'- gaCAgGCUUGa-------CGCGU------UGCAGCGACg -5'
19202 3' -53.8 NC_004684.1 + 56454 0.68 0.76271
Target:  5'- aUGUCgcggcUGAGCaUGCGCc-CGUCGCUGg -3'
miRNA:   3'- gACAG-----GCUUG-ACGCGuuGCAGCGACg -5'
19202 3' -53.8 NC_004684.1 + 54781 0.66 0.829898
Target:  5'- gUGcCCGcaAGgUGCGCGGCGUgGCggGCc -3'
miRNA:   3'- gACaGGC--UUgACGCGUUGCAgCGa-CG- -5'
19202 3' -53.8 NC_004684.1 + 54222 0.71 0.562789
Target:  5'- gCUGUCCuGGACcaggUGCGCGucacgcgucagcgacGCGaggCGCUGCg -3'
miRNA:   3'- -GACAGG-CUUG----ACGCGU---------------UGCa--GCGACG- -5'
19202 3' -53.8 NC_004684.1 + 51556 0.67 0.792516
Target:  5'- uUGU-CGcuCUGCGCcaguGCG-CGCUGCg -3'
miRNA:   3'- gACAgGCuuGACGCGu---UGCaGCGACG- -5'
19202 3' -53.8 NC_004684.1 + 50783 0.67 0.772792
Target:  5'- aUGUCCGcGCggucggUGCGCAACaugaaGUCGUcGCg -3'
miRNA:   3'- gACAGGCuUG------ACGCGUUG-----CAGCGaCG- -5'
19202 3' -53.8 NC_004684.1 + 50006 0.67 0.782731
Target:  5'- uCUGaCCGggUgUGCGCAcCGUCgGCgGCa -3'
miRNA:   3'- -GACaGGCuuG-ACGCGUuGCAG-CGaCG- -5'
19202 3' -53.8 NC_004684.1 + 48022 0.69 0.656458
Target:  5'- cCUGcUCCGGgaaccGCUGCGCGaucagGCGgCGCaUGCg -3'
miRNA:   3'- -GAC-AGGCU-----UGACGCGU-----UGCaGCG-ACG- -5'
19202 3' -53.8 NC_004684.1 + 43643 0.7 0.612725
Target:  5'- -gGcCCGAACUGCGCAccgagcaguGCGcCGCcaGCg -3'
miRNA:   3'- gaCaGGCUUGACGCGU---------UGCaGCGa-CG- -5'
19202 3' -53.8 NC_004684.1 + 43245 0.66 0.838754
Target:  5'- cCUGcaCCgGAGCggUGCGCAGCGgguacggcUGCUGCg -3'
miRNA:   3'- -GACa-GG-CUUG--ACGCGUUGCa-------GCGACG- -5'
19202 3' -53.8 NC_004684.1 + 42781 0.66 0.855813
Target:  5'- cCUGgCCGcccaUGCGCGccACGUcCGCUGUc -3'
miRNA:   3'- -GACaGGCuug-ACGCGU--UGCA-GCGACG- -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.