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
18954 3' -55 NC_004683.1 + 41121 0.65 0.70015
Target:  5'- --aUCAGCucGCC-GGCGAGGuaGGCg -3'
miRNA:   3'- uugAGUUGuuCGGaCCGUUCCggCUG- -5'
18954 3' -55 NC_004683.1 + 33813 0.65 0.70015
Target:  5'- gAACUCAACGGGgaCUGGCuguGGauccccuaaccCCGGCg -3'
miRNA:   3'- -UUGAGUUGUUCg-GACCGuu-CC-----------GGCUG- -5'
18954 3' -55 NC_004683.1 + 26424 0.65 0.70015
Target:  5'- gGGC-CAACGcGGCCUcGCAccGCCGACa -3'
miRNA:   3'- -UUGaGUUGU-UCGGAcCGUucCGGCUG- -5'
18954 3' -55 NC_004683.1 + 24093 0.65 0.70015
Target:  5'- gGGCUgGcccGCGcuGCUcGGCAAGGUCGACg -3'
miRNA:   3'- -UUGAgU---UGUu-CGGaCCGUUCCGGCUG- -5'
18954 3' -55 NC_004683.1 + 48010 0.65 0.699042
Target:  5'- cGCUCAGCGaauguugacgcauAGCaguuuUGGCAuccgGGGCUGGCu -3'
miRNA:   3'- uUGAGUUGU-------------UCGg----ACCGU----UCCGGCUG- -5'
18954 3' -55 NC_004683.1 + 41046 0.66 0.689036
Target:  5'- uGCgcgCGGcCAGGUC-GGCGuGGCCGACg -3'
miRNA:   3'- uUGa--GUU-GUUCGGaCCGUuCCGGCUG- -5'
18954 3' -55 NC_004683.1 + 41807 0.66 0.689036
Target:  5'- cGGCUCgGGCAGGUCUcgcGGCGAGG-UGACc -3'
miRNA:   3'- -UUGAG-UUGUUCGGA---CCGUUCCgGCUG- -5'
18954 3' -55 NC_004683.1 + 3272 0.66 0.689035
Target:  5'- uACUCAaacuacggGCAGGCCcgccgacGCcuGGCCGACg -3'
miRNA:   3'- uUGAGU--------UGUUCGGac-----CGuuCCGGCUG- -5'
18954 3' -55 NC_004683.1 + 365 0.66 0.682338
Target:  5'- -cCUCGACAgucgacaccggugcgGGCCUGGCGucGCUGuCg -3'
miRNA:   3'- uuGAGUUGU---------------UCGGACCGUucCGGCuG- -5'
18954 3' -55 NC_004683.1 + 11984 0.66 0.677864
Target:  5'- uGCUCAGgAgucAGCCcggggggugcUGGUggGGCCGGa -3'
miRNA:   3'- uUGAGUUgU---UCGG----------ACCGuuCCGGCUg -5'
18954 3' -55 NC_004683.1 + 25373 0.66 0.677864
Target:  5'- uACUCGcugugcgccuGCAGGCCcGGCAGcgcGGCCaGCa -3'
miRNA:   3'- uUGAGU----------UGUUCGGaCCGUU---CCGGcUG- -5'
18954 3' -55 NC_004683.1 + 2766 0.66 0.666646
Target:  5'- gAGCUCGGCGgcGGCCaacucgguUGGCGcaAGGUCGGu -3'
miRNA:   3'- -UUGAGUUGU--UCGG--------ACCGU--UCCGGCUg -5'
18954 3' -55 NC_004683.1 + 8470 0.66 0.666646
Target:  5'- gGGCUgGAUcgcGGCCcGcGCGGGGCCGAUc -3'
miRNA:   3'- -UUGAgUUGu--UCGGaC-CGUUCCGGCUG- -5'
18954 3' -55 NC_004683.1 + 1204 0.66 0.665523
Target:  5'- cGCUUGACGAGCUUGuGCAgcaccucGGaGUCGGCg -3'
miRNA:   3'- uUGAGUUGUUCGGAC-CGU-------UC-CGGCUG- -5'
18954 3' -55 NC_004683.1 + 34502 0.66 0.655394
Target:  5'- cGCUCucAUAGGCUgUGGCGaugAGaGCCGACa -3'
miRNA:   3'- uUGAGu-UGUUCGG-ACCGU---UC-CGGCUG- -5'
18954 3' -55 NC_004683.1 + 1874 0.66 0.64412
Target:  5'- gAACgugCcACAcGcCCUGGCAAcgucGGCCGGCg -3'
miRNA:   3'- -UUGa--GuUGUuC-GGACCGUU----CCGGCUG- -5'
18954 3' -55 NC_004683.1 + 44842 0.66 0.64412
Target:  5'- cAGCUCGcGCAaucgccgugguGGCCcGGCcugGAGGCCGAg -3'
miRNA:   3'- -UUGAGU-UGU-----------UCGGaCCG---UUCCGGCUg -5'
18954 3' -55 NC_004683.1 + 28613 0.66 0.64412
Target:  5'- gAAgUCGACGccgaaGGUUUGGC--GGCCGACg -3'
miRNA:   3'- -UUgAGUUGU-----UCGGACCGuuCCGGCUG- -5'
18954 3' -55 NC_004683.1 + 52779 0.66 0.64412
Target:  5'- cACUgCAAgAGGCgCUGcucgcCGAGGCCGACg -3'
miRNA:   3'- uUGA-GUUgUUCG-GACc----GUUCCGGCUG- -5'
18954 3' -55 NC_004683.1 + 10181 0.66 0.642992
Target:  5'- -uCUCGcCGAGCgaGGCGcgugagcGGGCCGAg -3'
miRNA:   3'- uuGAGUuGUUCGgaCCGU-------UCCGGCUg -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.