miRNA display CGI


Results 1 - 20 of 28 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
33089 3' -55.8 NC_007497.1 + 27674 0.65 0.609202
Target:  5'- cGAGCCGCgauucgccugcaacUGCGUGAUCCagucggCGGccgACGCg -3'
miRNA:   3'- -UUCGGCG--------------ACGCGCUAGG------GCUua-UGUG- -5'
33089 3' -55.8 NC_007497.1 + 10411 0.66 0.601301
Target:  5'- cGAGCCGCUaaguUGCcAUCCCGAucGCAUc -3'
miRNA:   3'- -UUCGGCGAc---GCGcUAGGGCUuaUGUG- -5'
33089 3' -55.8 NC_007497.1 + 19234 0.66 0.578814
Target:  5'- cGGCCGCUGCGCauacugcgguGAguugcuUUCCGAccgaugGCACg -3'
miRNA:   3'- uUCGGCGACGCG----------CU------AGGGCUua----UGUG- -5'
33089 3' -55.8 NC_007497.1 + 36893 0.66 0.578814
Target:  5'- -cGUCGCugUGCGCGAgccgcUCUCGAGgaccGCGCg -3'
miRNA:   3'- uuCGGCG--ACGCGCU-----AGGGCUUa---UGUG- -5'
33089 3' -55.8 NC_007497.1 + 40884 0.66 0.578814
Target:  5'- cGGCCGCUGCaGCGAcgCuCCGccguucGAUGCGg -3'
miRNA:   3'- uUCGGCGACG-CGCUa-G-GGC------UUAUGUg -5'
33089 3' -55.8 NC_007497.1 + 27118 0.66 0.578814
Target:  5'- cGGCCGCcgaUGCGCcgcCCCGccuUGCGCg -3'
miRNA:   3'- uUCGGCG---ACGCGcuaGGGCuu-AUGUG- -5'
33089 3' -55.8 NC_007497.1 + 34854 0.66 0.578814
Target:  5'- cGGCCGCggucucgcGCGCGAUCacggCCGcAUACGg -3'
miRNA:   3'- uUCGGCGa-------CGCGCUAG----GGCuUAUGUg -5'
33089 3' -55.8 NC_007497.1 + 19026 0.66 0.567636
Target:  5'- gAAGCCGCUGCuGCGuAUaagCgGGAUGCGg -3'
miRNA:   3'- -UUCGGCGACG-CGC-UAg--GgCUUAUGUg -5'
33089 3' -55.8 NC_007497.1 + 34587 0.66 0.567636
Target:  5'- cGGCCGCcguuUGCGCGA--CCGcg-GCACg -3'
miRNA:   3'- uUCGGCG----ACGCGCUagGGCuuaUGUG- -5'
33089 3' -55.8 NC_007497.1 + 33568 0.66 0.567636
Target:  5'- -uGCUGCUGCGCugGGUCagaaagcauaCGAcgACACg -3'
miRNA:   3'- uuCGGCGACGCG--CUAGg---------GCUuaUGUG- -5'
33089 3' -55.8 NC_007497.1 + 33345 0.66 0.560955
Target:  5'- -cGCaGCUGCGCGAUCCgcugcucgauguucuCGAGcagACGCc -3'
miRNA:   3'- uuCGgCGACGCGCUAGG---------------GCUUa--UGUG- -5'
33089 3' -55.8 NC_007497.1 + 26045 0.66 0.556513
Target:  5'- uGGUCGCUGCagucgGCGAUUgCCGAGggcgACAUg -3'
miRNA:   3'- uUCGGCGACG-----CGCUAG-GGCUUa---UGUG- -5'
33089 3' -55.8 NC_007497.1 + 39847 0.66 0.556513
Target:  5'- cGGCUGCUacGCaGCaGAUCCuCGAcgACGCg -3'
miRNA:   3'- uUCGGCGA--CG-CG-CUAGG-GCUuaUGUG- -5'
33089 3' -55.8 NC_007497.1 + 18410 0.66 0.556513
Target:  5'- aAAGCCGCgGCGCacaaaaGUCaCCGAGUAUcuGCc -3'
miRNA:   3'- -UUCGGCGaCGCGc-----UAG-GGCUUAUG--UG- -5'
33089 3' -55.8 NC_007497.1 + 35573 0.67 0.523558
Target:  5'- -uGCCGC-GCGCGAUCgCGucggcCACg -3'
miRNA:   3'- uuCGGCGaCGCGCUAGgGCuuau-GUG- -5'
33089 3' -55.8 NC_007497.1 + 909 0.67 0.502007
Target:  5'- cAGCCagGCUGCGCuucacCCCGAAgACGCc -3'
miRNA:   3'- uUCGG--CGACGCGcua--GGGCUUaUGUG- -5'
33089 3' -55.8 NC_007497.1 + 2607 0.67 0.502007
Target:  5'- cGGCCGCcgGCGCGcacgCCCGG--GCAg -3'
miRNA:   3'- uUCGGCGa-CGCGCua--GGGCUuaUGUg -5'
33089 3' -55.8 NC_007497.1 + 28098 0.67 0.498808
Target:  5'- uGGCUGgUGCGCGugcggcgcauuacgCCGAAUGCGCa -3'
miRNA:   3'- uUCGGCgACGCGCuag-----------GGCUUAUGUG- -5'
33089 3' -55.8 NC_007497.1 + 24158 0.68 0.480854
Target:  5'- -cGCCGCgaacaGCGCGAg-UCGGAUAUGCg -3'
miRNA:   3'- uuCGGCGa----CGCGCUagGGCUUAUGUG- -5'
33089 3' -55.8 NC_007497.1 + 27011 0.68 0.460144
Target:  5'- -cGCgCGaCUGUGCGAcgCCCGAcgGCAg -3'
miRNA:   3'- uuCG-GC-GACGCGCUa-GGGCUuaUGUg -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.