miRNA display CGI


Results 1 - 20 of 24 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
12176 3' -51.5 NC_003309.1 + 13082 0.66 0.916372
Target:  5'- ---uGCGGcgCGGAcCACGAacUCGCCg -3'
miRNA:   3'- uucuUGCCuaGCUU-GUGCUgcAGCGG- -5'
12176 3' -51.5 NC_003309.1 + 9711 0.66 0.909897
Target:  5'- -cGAGCGGuugccguguGUCGcGCGCGAUG-CGCa -3'
miRNA:   3'- uuCUUGCC---------UAGCuUGUGCUGCaGCGg -5'
12176 3' -51.5 NC_003309.1 + 27340 0.66 0.909897
Target:  5'- cGGGAGCGGcgcggCGAACugcCGAUGcaucagacuggaUCGCCa -3'
miRNA:   3'- -UUCUUGCCua---GCUUGu--GCUGC------------AGCGG- -5'
12176 3' -51.5 NC_003309.1 + 47871 0.66 0.902446
Target:  5'- -cGAGCGGccaUGaAGCGCGcuucgucACGUCGCCu -3'
miRNA:   3'- uuCUUGCCua-GC-UUGUGC-------UGCAGCGG- -5'
12176 3' -51.5 NC_003309.1 + 4185 0.66 0.901055
Target:  5'- cGAGGcagcGCGGAugucguccgccagcUCGAACGCGcCgGUCGCg -3'
miRNA:   3'- -UUCU----UGCCU--------------AGCUUGUGCuG-CAGCGg -5'
12176 3' -51.5 NC_003309.1 + 18706 0.66 0.896098
Target:  5'- ---uGCGGcgCGGAUACGGC--CGCCg -3'
miRNA:   3'- uucuUGCCuaGCUUGUGCUGcaGCGG- -5'
12176 3' -51.5 NC_003309.1 + 17912 0.66 0.881191
Target:  5'- cGAGAACGaacgugcGUCGAACGucaugcCGACGagCGCCg -3'
miRNA:   3'- -UUCUUGCc------UAGCUUGU------GCUGCa-GCGG- -5'
12176 3' -51.5 NC_003309.1 + 19426 0.67 0.848241
Target:  5'- cGGGAACGcccauuucaGGUCGAucccguACACGAUGccCGCCg -3'
miRNA:   3'- -UUCUUGC---------CUAGCU------UGUGCUGCa-GCGG- -5'
12176 3' -51.5 NC_003309.1 + 15705 0.67 0.848241
Target:  5'- -cGAGCgcgGGAUCGcuCACGGgGUUGUCg -3'
miRNA:   3'- uuCUUG---CCUAGCuuGUGCUgCAGCGG- -5'
12176 3' -51.5 NC_003309.1 + 32013 0.68 0.811529
Target:  5'- gGGGAcCGGG-CGcacCGCGGCGUCGCa -3'
miRNA:   3'- -UUCUuGCCUaGCuu-GUGCUGCAGCGg -5'
12176 3' -51.5 NC_003309.1 + 9540 0.68 0.801835
Target:  5'- ---cGCGGAUCGAACu--GCG-CGCCg -3'
miRNA:   3'- uucuUGCCUAGCUUGugcUGCaGCGG- -5'
12176 3' -51.5 NC_003309.1 + 24605 0.68 0.801835
Target:  5'- -cGAGCGGAUCGAcgAUGCGGCuaaucugcUCGUCu -3'
miRNA:   3'- uuCUUGCCUAGCU--UGUGCUGc-------AGCGG- -5'
12176 3' -51.5 NC_003309.1 + 42658 0.68 0.791957
Target:  5'- -cGAACGGGccggCGAugGCGuccUGUCGUCg -3'
miRNA:   3'- uuCUUGCCUa---GCUugUGCu--GCAGCGG- -5'
12176 3' -51.5 NC_003309.1 + 29351 0.69 0.785946
Target:  5'- -cGAGCGGGcUGGAUAUGACGUgaaggcacuccaaauUGCCg -3'
miRNA:   3'- uuCUUGCCUaGCUUGUGCUGCA---------------GCGG- -5'
12176 3' -51.5 NC_003309.1 + 11476 0.69 0.771691
Target:  5'- --cGGCGGcUCGAacaaguucGCACGuaguuCGUCGCCg -3'
miRNA:   3'- uucUUGCCuAGCU--------UGUGCu----GCAGCGG- -5'
12176 3' -51.5 NC_003309.1 + 22638 0.69 0.771691
Target:  5'- cGGcGCuGGAagcgcCGGGCACGcCGUCGCCa -3'
miRNA:   3'- uUCuUG-CCUa----GCUUGUGCuGCAGCGG- -5'
12176 3' -51.5 NC_003309.1 + 18331 0.69 0.76549
Target:  5'- uAGAcCGGAUCGGacggcauaucggccgACGCGACGacggaGCCg -3'
miRNA:   3'- uUCUuGCCUAGCU---------------UGUGCUGCag---CGG- -5'
12176 3' -51.5 NC_003309.1 + 22436 0.69 0.761327
Target:  5'- ----cCGGcGUCGAGCGCGGCG-CGCg -3'
miRNA:   3'- uucuuGCC-UAGCUUGUGCUGCaGCGg -5'
12176 3' -51.5 NC_003309.1 + 22467 0.69 0.740199
Target:  5'- --cGGCGGcAUCGuGCGCGGCGaUCGCa -3'
miRNA:   3'- uucUUGCC-UAGCuUGUGCUGC-AGCGg -5'
12176 3' -51.5 NC_003309.1 + 37311 0.7 0.718618
Target:  5'- ---cGCGcGAUCGuGCGCGACGcccugaaucUCGCCg -3'
miRNA:   3'- uucuUGC-CUAGCuUGUGCUGC---------AGCGG- -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.