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
19529 3' -56.2 NC_004685.1 + 39872 0.66 0.758515
Target:  5'- -gGAUGCCucacggaacAGCCCgGCgAUGUCCUCGa- -3'
miRNA:   3'- caCUAUGG---------UCGGG-CG-UGCAGGAGUcc -5'
19529 3' -56.2 NC_004685.1 + 56081 0.66 0.758515
Target:  5'- -cGGUugCGacggcGCUCG-AUGUCCUCGGGg -3'
miRNA:   3'- caCUAugGU-----CGGGCgUGCAGGAGUCC- -5'
19529 3' -56.2 NC_004685.1 + 32889 0.66 0.738239
Target:  5'- gGUGAUgacgcACCAGCCC-UGCGg-CUCGGGc -3'
miRNA:   3'- -CACUA-----UGGUCGGGcGUGCagGAGUCC- -5'
19529 3' -56.2 NC_004685.1 + 2871 0.66 0.738239
Target:  5'- uUGcgGCCGGUgCGCACGgcgCUggcCAGGa -3'
miRNA:   3'- cACuaUGGUCGgGCGUGCa--GGa--GUCC- -5'
19529 3' -56.2 NC_004685.1 + 35570 0.66 0.727942
Target:  5'- ----cACCuGCCCGCGC-UCCagGGGg -3'
miRNA:   3'- cacuaUGGuCGGGCGUGcAGGagUCC- -5'
19529 3' -56.2 NC_004685.1 + 51166 0.67 0.675304
Target:  5'- -cGGUugCGGaCgCGCACcgaaUCCUCGGGg -3'
miRNA:   3'- caCUAugGUC-GgGCGUGc---AGGAGUCC- -5'
19529 3' -56.2 NC_004685.1 + 35196 0.67 0.675304
Target:  5'- -cGAUACgAGUCCGCugGUCgCgcgCAcGGu -3'
miRNA:   3'- caCUAUGgUCGGGCGugCAG-Ga--GU-CC- -5'
19529 3' -56.2 NC_004685.1 + 23717 0.67 0.668897
Target:  5'- cUGGUucACCAGCCCGCgcaccugcuccaccaGCGUCgCcgugUCGGGc -3'
miRNA:   3'- cACUA--UGGUCGGGCG---------------UGCAG-G----AGUCC- -5'
19529 3' -56.2 NC_004685.1 + 45096 0.67 0.664619
Target:  5'- -aGAUGuCCGGCgcccgcucggguCCGC-CGUCCUCGGu -3'
miRNA:   3'- caCUAU-GGUCG------------GGCGuGCAGGAGUCc -5'
19529 3' -56.2 NC_004685.1 + 49585 0.67 0.643171
Target:  5'- ----cGCCAGCacCCGCGCGcCCUCguAGGc -3'
miRNA:   3'- cacuaUGGUCG--GGCGUGCaGGAG--UCC- -5'
19529 3' -56.2 NC_004685.1 + 58266 0.68 0.632427
Target:  5'- aGUGAaaccCCAGCCCuguucgGCuuuCGUCCUaCAGGu -3'
miRNA:   3'- -CACUau--GGUCGGG------CGu--GCAGGA-GUCC- -5'
19529 3' -56.2 NC_004685.1 + 31368 0.68 0.631353
Target:  5'- -aGAUcgGCCAgGCCCGCGCcuucaccGUCCUCGc- -3'
miRNA:   3'- caCUA--UGGU-CGGGCGUG-------CAGGAGUcc -5'
19529 3' -56.2 NC_004685.1 + 27849 0.68 0.621684
Target:  5'- ----gACCAGUCCGCGCGgagggucgcCCUCGGc -3'
miRNA:   3'- cacuaUGGUCGGGCGUGCa--------GGAGUCc -5'
19529 3' -56.2 NC_004685.1 + 60994 0.68 0.610949
Target:  5'- ----cACCAGUaCGCGCGgcCCUCGGGg -3'
miRNA:   3'- cacuaUGGUCGgGCGUGCa-GGAGUCC- -5'
19529 3' -56.2 NC_004685.1 + 1070 0.68 0.589541
Target:  5'- uUGGUGuu-GCCCGCGCaGUCCUgCGGGc -3'
miRNA:   3'- cACUAUgguCGGGCGUG-CAGGA-GUCC- -5'
19529 3' -56.2 NC_004685.1 + 53244 0.69 0.578883
Target:  5'- gGUGGUGgCGGCCUG-GCGUCCacgcuucggaUCGGGa -3'
miRNA:   3'- -CACUAUgGUCGGGCgUGCAGG----------AGUCC- -5'
19529 3' -56.2 NC_004685.1 + 26310 0.69 0.547194
Target:  5'- aUGGUGCC--CCCGCACcccgaCCUCGGGa -3'
miRNA:   3'- cACUAUGGucGGGCGUGca---GGAGUCC- -5'
19529 3' -56.2 NC_004685.1 + 29859 0.69 0.526373
Target:  5'- cGUGAUGUCGGCCgGCAgCGgaUCgUCAGGg -3'
miRNA:   3'- -CACUAUGGUCGGgCGU-GC--AGgAGUCC- -5'
19529 3' -56.2 NC_004685.1 + 51700 0.69 0.526373
Target:  5'- gGUGGUgcggcagccacuGCCGGCCCGCGauccaCUCGGGu -3'
miRNA:   3'- -CACUA------------UGGUCGGGCGUgcag-GAGUCC- -5'
19529 3' -56.2 NC_004685.1 + 57919 0.71 0.456186
Target:  5'- aGUGGg--CGGCCCGC-CGUCCUugcCGGGa -3'
miRNA:   3'- -CACUaugGUCGGGCGuGCAGGA---GUCC- -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.