miRNA display CGI


Results 1 - 20 of 142 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
12945 3' -55.9 NC_003387.1 + 213 0.7 0.436799
Target:  5'- --uGCCGcguucguCGAGGGuugacaugcGCGCCCCCGACa -3'
miRNA:   3'- ucuCGGUu------GCUCUU---------UGCGGGGGCUGg -5'
12945 3' -55.9 NC_003387.1 + 582 0.71 0.40855
Target:  5'- gAGAuuGCCAACGAGAuugcggcgauuGACGCUCa-GGCCg -3'
miRNA:   3'- -UCU--CGGUUGCUCU-----------UUGCGGGggCUGG- -5'
12945 3' -55.9 NC_003387.1 + 620 0.67 0.635572
Target:  5'- cGAGCagGGCGAGGgcAGCGUCgCCG-CCg -3'
miRNA:   3'- uCUCGg-UUGCUCU--UUGCGGgGGCuGG- -5'
12945 3' -55.9 NC_003387.1 + 1349 0.75 0.215438
Target:  5'- --cGCCGACGAG-GACGCcgaCCCCGACg -3'
miRNA:   3'- ucuCGGUUGCUCuUUGCG---GGGGCUGg -5'
12945 3' -55.9 NC_003387.1 + 1734 0.79 0.132515
Target:  5'- -cAGCaAACGA-AAACGCCCCCGGCCg -3'
miRNA:   3'- ucUCGgUUGCUcUUUGCGGGGGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 2092 0.72 0.358988
Target:  5'- gGGGGCCGugacuguuccuguugACGuGAucgccGACGCCCCagCGGCCg -3'
miRNA:   3'- -UCUCGGU---------------UGCuCU-----UUGCGGGG--GCUGG- -5'
12945 3' -55.9 NC_003387.1 + 2167 0.66 0.689953
Target:  5'- aGGuGUCAACacaAAGCGCCCCCcgaGCCa -3'
miRNA:   3'- -UCuCGGUUGcucUUUGCGGGGGc--UGG- -5'
12945 3' -55.9 NC_003387.1 + 2985 0.67 0.613728
Target:  5'- cGGGGCCucGCGAG--GCGCUgCUCGAUCu -3'
miRNA:   3'- -UCUCGGu-UGCUCuuUGCGG-GGGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 3631 0.72 0.339073
Target:  5'- cGGGCguGCGGGuauCGCCgUCGACCg -3'
miRNA:   3'- uCUCGguUGCUCuuuGCGGgGGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 3914 0.67 0.646495
Target:  5'- cGA-CCGGCGGGAcgAugGCCgCCG-CCg -3'
miRNA:   3'- uCUcGGUUGCUCU--UugCGGgGGCuGG- -5'
12945 3' -55.9 NC_003387.1 + 4286 0.72 0.355613
Target:  5'- uGGAgGCCGcggGCGAGcAGCGCaCCgCGACCc -3'
miRNA:   3'- -UCU-CGGU---UGCUCuUUGCG-GGgGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 4446 0.67 0.613728
Target:  5'- cGAGCCcGCGccGAAgGCCgagCCGACCg -3'
miRNA:   3'- uCUCGGuUGCucUUUgCGGg--GGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 4494 0.71 0.390363
Target:  5'- cGAGCCcGCG-GAGGCcCCgCUCGACCg -3'
miRNA:   3'- uCUCGGuUGCuCUUUGcGG-GGGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 4622 0.67 0.635572
Target:  5'- cGAGCCAccGCGGGcgcagcggcAGCGCCaCCCGuCg -3'
miRNA:   3'- uCUCGGU--UGCUCu--------UUGCGG-GGGCuGg -5'
12945 3' -55.9 NC_003387.1 + 5122 0.66 0.67806
Target:  5'- cGAGCUgaucgccgcacgcGACGAGggGCGCUCggcgCCGGUCg -3'
miRNA:   3'- uCUCGG-------------UUGCUCuuUGCGGG----GGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 5673 0.66 0.668291
Target:  5'- cGGGGUaaAACGAGcgccACGCCucaugCCCGGCCg -3'
miRNA:   3'- -UCUCGg-UUGCUCuu--UGCGG-----GGGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 5764 0.66 0.711395
Target:  5'- -cGGCCGACGAGcugauCGCCUggcgUGACCa -3'
miRNA:   3'- ucUCGGUUGCUCuuu--GCGGGg---GCUGG- -5'
12945 3' -55.9 NC_003387.1 + 5960 0.66 0.679144
Target:  5'- --cGCCGaaccGCGAGu--CGCUcgaCCCGGCCg -3'
miRNA:   3'- ucuCGGU----UGCUCuuuGCGG---GGGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 6960 0.68 0.538216
Target:  5'- cGGGCaGGCGccacagcGCGCCCUCGGCCa -3'
miRNA:   3'- uCUCGgUUGCucuu---UGCGGGGGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 7137 0.66 0.700707
Target:  5'- -cAGCCAcGCGAGGcccgGCuCCUCGGCCg -3'
miRNA:   3'- ucUCGGU-UGCUCUuug-CG-GGGGCUGG- -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.