miRNA display CGI


Results 1 - 20 of 58 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
29732 3' -52.9 NC_006273.1 + 167667 0.66 0.992031
Target:  5'- --aACGgCGgggUCGGCCgccguucgucgUCACGGGGc -3'
miRNA:   3'- acaUGCgGCaaaAGCCGG-----------AGUGCUCC- -5'
29732 3' -52.9 NC_006273.1 + 196631 0.68 0.972088
Target:  5'- -cUGCGCCGgcggUgGGCCggCACGAcGGu -3'
miRNA:   3'- acAUGCGGCaaa-AgCCGGa-GUGCU-CC- -5'
29732 3' -52.9 NC_006273.1 + 113674 0.68 0.979215
Target:  5'- cUGUugGCCGUgaccgagagcgUgcgcagCGGCUgggaucccucacgUCGCGAGGa -3'
miRNA:   3'- -ACAugCGGCA-----------Aaa----GCCGG-------------AGUGCUCC- -5'
29732 3' -52.9 NC_006273.1 + 38720 0.68 0.982322
Target:  5'- cGUGCGCCacgccaagauucaccGU--UCGGCCUCGCa--- -3'
miRNA:   3'- aCAUGCGG---------------CAaaAGCCGGAGUGcucc -5'
29732 3' -52.9 NC_006273.1 + 133907 0.68 0.983462
Target:  5'- --aGCGCCuugucgCGGCC-CAUGAGGu -3'
miRNA:   3'- acaUGCGGcaaaa-GCCGGaGUGCUCC- -5'
29732 3' -52.9 NC_006273.1 + 148696 0.67 0.986863
Target:  5'- cGUGgGCCGgc--CGGCaagCugGAGGu -3'
miRNA:   3'- aCAUgCGGCaaaaGCCGga-GugCUCC- -5'
29732 3' -52.9 NC_006273.1 + 123477 0.67 0.989698
Target:  5'- gUGUAaCGCCGUgugaugcgCGGCUUUACGucGu -3'
miRNA:   3'- -ACAU-GCGGCAaaa-----GCCGGAGUGCucC- -5'
29732 3' -52.9 NC_006273.1 + 159328 0.67 0.989698
Target:  5'- -aUACGUCGUcacCGuCCUCugGAGGa -3'
miRNA:   3'- acAUGCGGCAaaaGCcGGAGugCUCC- -5'
29732 3' -52.9 NC_006273.1 + 139942 0.67 0.990923
Target:  5'- --gGCGCUGg---UGGCCU-GCGAGGc -3'
miRNA:   3'- acaUGCGGCaaaaGCCGGAgUGCUCC- -5'
29732 3' -52.9 NC_006273.1 + 37892 0.68 0.972088
Target:  5'- --gGCGCCG-----GGCCUCGCGcAGGu -3'
miRNA:   3'- acaUGCGGCaaaagCCGGAGUGC-UCC- -5'
29732 3' -52.9 NC_006273.1 + 234315 0.69 0.969264
Target:  5'- --gGCGCCcgg--CGGCC-CGCGGGGu -3'
miRNA:   3'- acaUGCGGcaaaaGCCGGaGUGCUCC- -5'
29732 3' -52.9 NC_006273.1 + 117455 0.69 0.966554
Target:  5'- cGU-CGCCGgcUgugucgucucuagcgUGGCCUCACGAcGGa -3'
miRNA:   3'- aCAuGCGGCaaAa--------------GCCGGAGUGCU-CC- -5'
29732 3' -52.9 NC_006273.1 + 125338 0.73 0.852695
Target:  5'- cGU-CGCCGUccuccucaccggaCGGCCUCACGAGu -3'
miRNA:   3'- aCAuGCGGCAaaa----------GCCGGAGUGCUCc -5'
29732 3' -52.9 NC_006273.1 + 163844 0.72 0.888013
Target:  5'- aGU-CGCCGgcagCGGCCgccgGCGAGGg -3'
miRNA:   3'- aCAuGCGGCaaaaGCCGGag--UGCUCC- -5'
29732 3' -52.9 NC_006273.1 + 139887 0.72 0.90096
Target:  5'- cGgcCGCCGaUUUcUCGGUCUC-CGAGGc -3'
miRNA:   3'- aCauGCGGC-AAA-AGCCGGAGuGCUCC- -5'
29732 3' -52.9 NC_006273.1 + 68546 0.7 0.934371
Target:  5'- gGUGCGCUGgaugcUGGCUuuUCugGAGGa -3'
miRNA:   3'- aCAUGCGGCaaaa-GCCGG--AGugCUCC- -5'
29732 3' -52.9 NC_006273.1 + 76533 0.7 0.939137
Target:  5'- cGU-CGCCGc--UCGGCgCggcgCACGAGGa -3'
miRNA:   3'- aCAuGCGGCaaaAGCCG-Ga---GUGCUCC- -5'
29732 3' -52.9 NC_006273.1 + 35407 0.7 0.95207
Target:  5'- uUGUugGCCucg-UCGGCCUCggccacguuccACGAGc -3'
miRNA:   3'- -ACAugCGGcaaaAGCCGGAG-----------UGCUCc -5'
29732 3' -52.9 NC_006273.1 + 76094 0.7 0.95207
Target:  5'- aUGUGgGCCGgcacCGGCgUCAUGAGc -3'
miRNA:   3'- -ACAUgCGGCaaaaGCCGgAGUGCUCc -5'
29732 3' -52.9 NC_006273.1 + 33134 0.7 0.95207
Target:  5'- --cGCGCCGccg-CGGCUUCAUGuGGc -3'
miRNA:   3'- acaUGCGGCaaaaGCCGGAGUGCuCC- -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.