miRNA display CGI


Results 1 - 20 of 50 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
13307 5' -52.5 NC_003409.1 + 54394 1.07 0.006171
Target:  5'- gUACCAGGCGGCCAGAAAAACACACGAc -3'
miRNA:   3'- -AUGGUCCGCCGGUCUUUUUGUGUGCU- -5'
13307 5' -52.5 NC_003409.1 + 64780 0.83 0.213199
Target:  5'- aACCAGGUGGCCAGAAAAGgaaGCACa- -3'
miRNA:   3'- aUGGUCCGCCGGUCUUUUUg--UGUGcu -5'
13307 5' -52.5 NC_003409.1 + 121949 0.75 0.587328
Target:  5'- -cCCAGGaCGGCCGGAu--GCGgGCGAu -3'
miRNA:   3'- auGGUCC-GCCGGUCUuuuUGUgUGCU- -5'
13307 5' -52.5 NC_003409.1 + 131704 0.74 0.608589
Target:  5'- gUGCUgcGGGCGGCCAGGGAcuaccgcugcguGGCACACc- -3'
miRNA:   3'- -AUGG--UCCGCCGGUCUUU------------UUGUGUGcu -5'
13307 5' -52.5 NC_003409.1 + 97129 0.74 0.608589
Target:  5'- gGCCaAGGCGGCCGGGGuGACGCuuGu -3'
miRNA:   3'- aUGG-UCCGCCGGUCUUuUUGUGugCu -5'
13307 5' -52.5 NC_003409.1 + 110290 0.74 0.638467
Target:  5'- cACCGuccuucguggugcGGCGGCCAGGGAGGCGaauggcuCGCGAu -3'
miRNA:   3'- aUGGU-------------CCGCCGGUCUUUUUGU-------GUGCU- -5'
13307 5' -52.5 NC_003409.1 + 110364 0.74 0.640602
Target:  5'- aGCCAGGCGGCUu----GACGCGCa- -3'
miRNA:   3'- aUGGUCCGCCGGucuuuUUGUGUGcu -5'
13307 5' -52.5 NC_003409.1 + 120214 0.73 0.704171
Target:  5'- -uCCAGGCGGCU-----GGCACACGGg -3'
miRNA:   3'- auGGUCCGCCGGucuuuUUGUGUGCU- -5'
13307 5' -52.5 NC_003409.1 + 112131 0.71 0.784819
Target:  5'- cGCCcGGgGGCCAGGAcu-CACugGGg -3'
miRNA:   3'- aUGGuCCgCCGGUCUUuuuGUGugCU- -5'
13307 5' -52.5 NC_003409.1 + 101537 0.71 0.784819
Target:  5'- aACCAGGCGuCCA--AGAGCGCGCGc -3'
miRNA:   3'- aUGGUCCGCcGGUcuUUUUGUGUGCu -5'
13307 5' -52.5 NC_003409.1 + 20641 0.71 0.811973
Target:  5'- cGCCAGGCcgcgcccGGCCAGGAAcuCcCugGAg -3'
miRNA:   3'- aUGGUCCG-------CCGGUCUUUuuGuGugCU- -5'
13307 5' -52.5 NC_003409.1 + 119494 0.71 0.812885
Target:  5'- gGCCAauGGCGGCuCGGAAAacuuuGAUugACGGg -3'
miRNA:   3'- aUGGU--CCGCCG-GUCUUU-----UUGugUGCU- -5'
13307 5' -52.5 NC_003409.1 + 109425 0.71 0.812885
Target:  5'- aUACgCAcaUGGCCAGGAAAGCAUugGAg -3'
miRNA:   3'- -AUG-GUccGCCGGUCUUUUUGUGugCU- -5'
13307 5' -52.5 NC_003409.1 + 23516 0.71 0.812885
Target:  5'- gGCCAauGGCGGCuCGGAAAacuuuGAUugACGGg -3'
miRNA:   3'- aUGGU--CCGCCG-GUCUUU-----UUGugUGCU- -5'
13307 5' -52.5 NC_003409.1 + 79914 0.7 0.830718
Target:  5'- aGCCAGGCcaccuGGCUcuGGAAAGuGCACGCGu -3'
miRNA:   3'- aUGGUCCG-----CCGG--UCUUUU-UGUGUGCu -5'
13307 5' -52.5 NC_003409.1 + 4371 0.69 0.863963
Target:  5'- cUGCCuucaaGGGCGuGCCAGugucuGCACugGAu -3'
miRNA:   3'- -AUGG-----UCCGC-CGGUCuuuu-UGUGugCU- -5'
13307 5' -52.5 NC_003409.1 + 109917 0.69 0.871724
Target:  5'- cGCCuGGuCGGCCAGGcgcaGGAACGCucugGCGGc -3'
miRNA:   3'- aUGGuCC-GCCGGUCU----UUUUGUG----UGCU- -5'
13307 5' -52.5 NC_003409.1 + 91948 0.69 0.879251
Target:  5'- gGCC-GGCGGcCCAGAAAcaGGgACGCGu -3'
miRNA:   3'- aUGGuCCGCC-GGUCUUU--UUgUGUGCu -5'
13307 5' -52.5 NC_003409.1 + 60138 0.69 0.892889
Target:  5'- cGCCAGGCGGCgcugcggCGGGAGAGC-CAaucUGAu -3'
miRNA:   3'- aUGGUCCGCCG-------GUCUUUUUGuGU---GCU- -5'
13307 5' -52.5 NC_003409.1 + 40300 0.69 0.893582
Target:  5'- aGCCAGucguacGCGGCCAcGAAuucgaGGACACGCa- -3'
miRNA:   3'- aUGGUC------CGCCGGU-CUU-----UUUGUGUGcu -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.