miRNA display CGI


Results 1 - 20 of 35 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
18452 3' -56.8 NC_004681.1 + 7190 0.66 0.750821
Target:  5'- -aUGCCaGCGUUGAGgAgUUCCCGGUGg -3'
miRNA:   3'- cgGCGG-CGCAGUUCaUgAGGGGCUAC- -5'
18452 3' -56.8 NC_004681.1 + 44597 0.66 0.740797
Target:  5'- gGCCGCCGCacuacucaccccGUCc--UGCUCgCUGAUGa -3'
miRNA:   3'- -CGGCGGCG------------CAGuucAUGAGgGGCUAC- -5'
18452 3' -56.8 NC_004681.1 + 43705 0.66 0.740797
Target:  5'- cGCCGCCGC----AGUACaccgccgCCCuCGGUGa -3'
miRNA:   3'- -CGGCGGCGcaguUCAUGa------GGG-GCUAC- -5'
18452 3' -56.8 NC_004681.1 + 64936 0.66 0.740797
Target:  5'- gGUCGCgGCG-CAGGUACcagUCCCaCGGg- -3'
miRNA:   3'- -CGGCGgCGCaGUUCAUG---AGGG-GCUac -5'
18452 3' -56.8 NC_004681.1 + 66758 0.66 0.740797
Target:  5'- cCCgGCC-CcUCGGGUACcCCCCGAUGc -3'
miRNA:   3'- cGG-CGGcGcAGUUCAUGaGGGGCUAC- -5'
18452 3' -56.8 NC_004681.1 + 56148 0.66 0.730672
Target:  5'- aCCGCCGCaUCAAGgcgaugaaGCUCCgCGGc- -3'
miRNA:   3'- cGGCGGCGcAGUUCa-------UGAGGgGCUac -5'
18452 3' -56.8 NC_004681.1 + 32315 0.66 0.720455
Target:  5'- uGCCGCUGCGau-GGccUGCUCCaccagguugCCGAUGa -3'
miRNA:   3'- -CGGCGGCGCaguUC--AUGAGG---------GGCUAC- -5'
18452 3' -56.8 NC_004681.1 + 26545 0.66 0.710157
Target:  5'- aGCCGUacucuggcggCGCGaaGGG-GCUUCCCGAUGg -3'
miRNA:   3'- -CGGCG----------GCGCagUUCaUGAGGGGCUAC- -5'
18452 3' -56.8 NC_004681.1 + 60123 0.67 0.699787
Target:  5'- aGCCGCCgaagGCGagCAGGUGC-CCaCCGGg- -3'
miRNA:   3'- -CGGCGG----CGCa-GUUCAUGaGG-GGCUac -5'
18452 3' -56.8 NC_004681.1 + 45485 0.67 0.689358
Target:  5'- aCCGCUGCccuUgAGGUGCUCCCCc--- -3'
miRNA:   3'- cGGCGGCGc--AgUUCAUGAGGGGcuac -5'
18452 3' -56.8 NC_004681.1 + 7437 0.67 0.678877
Target:  5'- cGCCGCgGCGgCGGGgucagCCCCGGg- -3'
miRNA:   3'- -CGGCGgCGCaGUUCauga-GGGGCUac -5'
18452 3' -56.8 NC_004681.1 + 3108 0.67 0.677826
Target:  5'- uGCCGCUgGCGUagucguaggagagCGGGUACcggcugCCUCGAUGg -3'
miRNA:   3'- -CGGCGG-CGCA-------------GUUCAUGa-----GGGGCUAC- -5'
18452 3' -56.8 NC_004681.1 + 21430 0.67 0.668355
Target:  5'- cGCCGCUGCgGUCGAccACgUCCacgaCGAUGg -3'
miRNA:   3'- -CGGCGGCG-CAGUUcaUG-AGGg---GCUAC- -5'
18452 3' -56.8 NC_004681.1 + 44741 0.67 0.657801
Target:  5'- cGCCuUCGaCGUCGAGgACUCCCuCGcgGg -3'
miRNA:   3'- -CGGcGGC-GCAGUUCaUGAGGG-GCuaC- -5'
18452 3' -56.8 NC_004681.1 + 6613 0.67 0.657801
Target:  5'- aGgCGCCGCGgcucGGUcUUCCCCGAg- -3'
miRNA:   3'- -CgGCGGCGCagu-UCAuGAGGGGCUac -5'
18452 3' -56.8 NC_004681.1 + 32216 0.67 0.657801
Target:  5'- gGCCGCCGCGgugaccGCUUCCUGGa- -3'
miRNA:   3'- -CGGCGGCGCaguucaUGAGGGGCUac -5'
18452 3' -56.8 NC_004681.1 + 2723 0.67 0.647226
Target:  5'- uCCGCgGCGUgAAcGUAaUCCCCGAc- -3'
miRNA:   3'- cGGCGgCGCAgUU-CAUgAGGGGCUac -5'
18452 3' -56.8 NC_004681.1 + 51822 0.68 0.615458
Target:  5'- gGCCGCCGaCGaccacCAGGU--UCCCCGggGa -3'
miRNA:   3'- -CGGCGGC-GCa----GUUCAugAGGGGCuaC- -5'
18452 3' -56.8 NC_004681.1 + 61670 0.68 0.615458
Target:  5'- cGCCGCCGCGgaggCcgccgccgAGGU-CUCCaaGAUGg -3'
miRNA:   3'- -CGGCGGCGCa---G--------UUCAuGAGGggCUAC- -5'
18452 3' -56.8 NC_004681.1 + 46922 0.68 0.604885
Target:  5'- uGCCGCggggcUGCGUCucguagcgcuccGAGUAUUCCUCGAc- -3'
miRNA:   3'- -CGGCG-----GCGCAG------------UUCAUGAGGGGCUac -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.