miRNA display CGI


Results 1 - 15 of 15 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
12225 3' -53.9 NC_003309.1 + 45876 0.77 0.221912
Target:  5'- cGCGuuGAUCacgCGGCGACGGCCgucGAUCACGAg -3'
miRNA:   3'- -CGU--CUAG---GUCGUUGCCGG---CUAGUGCU- -5'
12225 3' -53.9 NC_003309.1 + 43639 0.69 0.5793
Target:  5'- cGCAGcgUCGGUuccUGGCCGAucUCGCGGu -3'
miRNA:   3'- -CGUCuaGGUCGuu-GCCGGCU--AGUGCU- -5'
12225 3' -53.9 NC_003309.1 + 37237 0.67 0.743895
Target:  5'- gGCGGcgCuaCAGCAGCGcGUCGAggACGAg -3'
miRNA:   3'- -CGUCuaG--GUCGUUGC-CGGCUagUGCU- -5'
12225 3' -53.9 NC_003309.1 + 34096 0.72 0.442687
Target:  5'- uGCAGGUCUA-CGGCGuGCCGAaggUCugGAa -3'
miRNA:   3'- -CGUCUAGGUcGUUGC-CGGCU---AGugCU- -5'
12225 3' -53.9 NC_003309.1 + 32935 0.71 0.47684
Target:  5'- aGCuGAUCgCGGCAagcaacaacggcuauGCGGCCGGacugCGCGAc -3'
miRNA:   3'- -CGuCUAG-GUCGU---------------UGCCGGCUa---GUGCU- -5'
12225 3' -53.9 NC_003309.1 + 23479 0.76 0.246589
Target:  5'- gGCGGAUCaagguagaaCAGCGuguGCGGCCGAUCguaACGAu -3'
miRNA:   3'- -CGUCUAG---------GUCGU---UGCCGGCUAG---UGCU- -5'
12225 3' -53.9 NC_003309.1 + 18666 0.69 0.623577
Target:  5'- uUAGggUCGGCAACGGC-GAUCACc- -3'
miRNA:   3'- cGUCuaGGUCGUUGCCGgCUAGUGcu -5'
12225 3' -53.9 NC_003309.1 + 18327 0.72 0.432906
Target:  5'- cCGGAUCggaCGGCAuauCGGCCGA-CGCGAc -3'
miRNA:   3'- cGUCUAG---GUCGUu--GCCGGCUaGUGCU- -5'
12225 3' -53.9 NC_003309.1 + 15335 0.72 0.452591
Target:  5'- cGCAGcgUCGGCGAUGGCUGcugCGCGu -3'
miRNA:   3'- -CGUCuaGGUCGUUGCCGGCua-GUGCu -5'
12225 3' -53.9 NC_003309.1 + 15019 0.68 0.6458
Target:  5'- aCGGAaggUCAGCGACGGCCGccccuUCgACGGc -3'
miRNA:   3'- cGUCUa--GGUCGUUGCCGGCu----AG-UGCU- -5'
12225 3' -53.9 NC_003309.1 + 11075 0.67 0.743895
Target:  5'- cGCGGAa-CAGCAaccaguucGCGGCCGcgC-CGAg -3'
miRNA:   3'- -CGUCUagGUCGU--------UGCCGGCuaGuGCU- -5'
12225 3' -53.9 NC_003309.1 + 10693 0.67 0.7333
Target:  5'- -gAGcUCCugcugcGCGGCGGCCGucUCGCGGg -3'
miRNA:   3'- cgUCuAGGu-----CGUUGCCGGCu-AGUGCU- -5'
12225 3' -53.9 NC_003309.1 + 8624 0.68 0.667972
Target:  5'- aGCGGGUUCAGCAccgcugcacGCaGGCUcGUCACGc -3'
miRNA:   3'- -CGUCUAGGUCGU---------UG-CCGGcUAGUGCu -5'
12225 3' -53.9 NC_003309.1 + 4177 0.74 0.359466
Target:  5'- cGCGGAUgucguccgCCAGCucgAACGcGCCGGUCGCGc -3'
miRNA:   3'- -CGUCUA--------GGUCG---UUGC-CGGCUAGUGCu -5'
12225 3' -53.9 NC_003309.1 + 3330 0.66 0.774939
Target:  5'- uGUAGAUCCGcGCGAUG-UCGAgCGCGGa -3'
miRNA:   3'- -CGUCUAGGU-CGUUGCcGGCUaGUGCU- -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.