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 + 4371 0.69 0.863963
Target:  5'- cUGCCuucaaGGGCGuGCCAGugucuGCACugGAu -3'
miRNA:   3'- -AUGG-----UCCGC-CGGUCuuuu-UGUGugCU- -5'
13307 5' -52.5 NC_003409.1 + 5590 0.69 0.893582
Target:  5'- cUACCAGGUGuCuCGGggGAACACcuaACGGa -3'
miRNA:   3'- -AUGGUCCGCcG-GUCuuUUUGUG---UGCU- -5'
13307 5' -52.5 NC_003409.1 + 10432 0.68 0.930507
Target:  5'- aACCAGGUGGaaaCCuGcAAAGACACcuGCGAa -3'
miRNA:   3'- aUGGUCCGCC---GGuC-UUUUUGUG--UGCU- -5'
13307 5' -52.5 NC_003409.1 + 10493 0.67 0.949951
Target:  5'- cACCAGGgGGCgCGcgu-AACACACGu -3'
miRNA:   3'- aUGGUCCgCCG-GUcuuuUUGUGUGCu -5'
13307 5' -52.5 NC_003409.1 + 18147 0.68 0.900376
Target:  5'- gGCCAGG-GGCCAGu-GAGCGCcuccCGGu -3'
miRNA:   3'- aUGGUCCgCCGGUCuuUUUGUGu---GCU- -5'
13307 5' -52.5 NC_003409.1 + 18280 0.66 0.961886
Target:  5'- cACCAGGgGGCgGGGuuucuAACGUGCGAc -3'
miRNA:   3'- aUGGUCCgCCGgUCUuu---UUGUGUGCU- -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 + 20795 0.66 0.961886
Target:  5'- gGCCGGGCgcGGCCu----GGCGCACa- -3'
miRNA:   3'- aUGGUCCG--CCGGucuuuUUGUGUGcu -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 + 31672 0.66 0.97284
Target:  5'- gGCCAGGCcuaauggggugugggGGCCAGAuguucccCAC-CGAc -3'
miRNA:   3'- aUGGUCCG---------------CCGGUCUuuuu---GUGuGCU- -5'
13307 5' -52.5 NC_003409.1 + 32146 0.67 0.954176
Target:  5'- aGCCuGGauGCCAGcucuagGAAGGCugGCGAc -3'
miRNA:   3'- aUGGuCCgcCGGUC------UUUUUGugUGCU- -5'
13307 5' -52.5 NC_003409.1 + 33461 0.68 0.900376
Target:  5'- cGCCucgaGGGCGGCCAGuauuaugccaggGAAGAUgaaggACACGGg -3'
miRNA:   3'- aUGG----UCCGCCGGUC------------UUUUUG-----UGUGCU- -5'
13307 5' -52.5 NC_003409.1 + 33983 0.66 0.971686
Target:  5'- --aCGGGCGcGCCAGGGAcAGCGCcCGc -3'
miRNA:   3'- augGUCCGC-CGGUCUUU-UUGUGuGCu -5'
13307 5' -52.5 NC_003409.1 + 37959 0.66 0.968647
Target:  5'- gGCCAGGCGcGCCugcgcagcucaAGAGGcGGCGC-CGGa -3'
miRNA:   3'- aUGGUCCGC-CGG-----------UCUUU-UUGUGuGCU- -5'
13307 5' -52.5 NC_003409.1 + 40300 0.69 0.893582
Target:  5'- aGCCAGucguacGCGGCCAcGAAuucgaGGACACGCa- -3'
miRNA:   3'- aUGGUC------CGCCGGU-CUU-----UUUGUGUGcu -5'
13307 5' -52.5 NC_003409.1 + 45626 0.67 0.935755
Target:  5'- cACCAGGCuccccaaCCAGAGAAACGCGg-- -3'
miRNA:   3'- aUGGUCCGcc-----GGUCUUUUUGUGUgcu -5'
13307 5' -52.5 NC_003409.1 + 45889 0.66 0.965382
Target:  5'- cGCCcgGGGUGGCCuGAcAAGACGCggcauacgccGCGAc -3'
miRNA:   3'- aUGG--UCCGCCGGuCU-UUUUGUG----------UGCU- -5'
13307 5' -52.5 NC_003409.1 + 47096 0.66 0.958153
Target:  5'- gACUgaaGGGCGGCCAGuucaucagcGAAGAguCugGAg -3'
miRNA:   3'- aUGG---UCCGCCGGUC---------UUUUUguGugCU- -5'
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 + 54888 0.68 0.91923
Target:  5'- -uUCGGGCGGCgggugaGGAAAucGCACugGAc -3'
miRNA:   3'- auGGUCCGCCGg-----UCUUUu-UGUGugCU- -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.