miRNA display CGI


Results 1 - 20 of 46 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
28806 3' -56.8 NC_006146.1 + 63435 0.76 0.328225
Target:  5'- aGCGCgGCCaUGCGCCACAAGcUgAAGa -3'
miRNA:   3'- aCGCGgCGG-ACGCGGUGUUCuAgUUU- -5'
28806 3' -56.8 NC_006146.1 + 121813 0.67 0.793155
Target:  5'- --aGCCGCCUGaGCCACAgccGGAgccUCAGc -3'
miRNA:   3'- acgCGGCGGACgCGGUGU---UCU---AGUUu -5'
28806 3' -56.8 NC_006146.1 + 152237 0.66 0.860942
Target:  5'- aGCGUCGCCUGCgaagGCCggGCAugcGAUCc-- -3'
miRNA:   3'- aCGCGGCGGACG----CGG--UGUu--CUAGuuu -5'
28806 3' -56.8 NC_006146.1 + 159548 0.66 0.875926
Target:  5'- cGCGCagCGCCUGCGCCaggcccguguACAGcGUCu-- -3'
miRNA:   3'- aCGCG--GCGGACGCGG----------UGUUcUAGuuu -5'
28806 3' -56.8 NC_006146.1 + 104191 0.71 0.592803
Target:  5'- aGgGCCGUCUGCGCCcccACGGGGccgCAAGc -3'
miRNA:   3'- aCgCGGCGGACGCGG---UGUUCUa--GUUU- -5'
28806 3' -56.8 NC_006146.1 + 54400 0.7 0.627867
Target:  5'- gGUGCCGCCUccucGCGCCGCuccuccgcgguggagAGGGUCu-- -3'
miRNA:   3'- aCGCGGCGGA----CGCGGUG---------------UUCUAGuuu -5'
28806 3' -56.8 NC_006146.1 + 96431 0.7 0.654721
Target:  5'- aGCGCCGCUcaaggccaucgUGgGCCAUggGggCAGGg -3'
miRNA:   3'- aCGCGGCGG-----------ACgCGGUGuuCuaGUUU- -5'
28806 3' -56.8 NC_006146.1 + 98454 0.69 0.675302
Target:  5'- gGCGCCGCCcggGgGCCAgucucuGGGUCAGu -3'
miRNA:   3'- aCGCGGCGGa--CgCGGUgu----UCUAGUUu -5'
28806 3' -56.8 NC_006146.1 + 60014 0.69 0.715957
Target:  5'- cGCGgccccguccCCGCCUGCGCC-CGAGccCGAGa -3'
miRNA:   3'- aCGC---------GGCGGACGCGGuGUUCuaGUUU- -5'
28806 3' -56.8 NC_006146.1 + 160211 0.67 0.783926
Target:  5'- cUGUGCUGCCUGCaugaugcCCGCGGGuAUCGc- -3'
miRNA:   3'- -ACGCGGCGGACGc------GGUGUUC-UAGUuu -5'
28806 3' -56.8 NC_006146.1 + 48883 0.68 0.735884
Target:  5'- gGCGCCagGCCUGCGCCucuucugucucaGCu-GAUCGu- -3'
miRNA:   3'- aCGCGG--CGGACGCGG------------UGuuCUAGUuu -5'
28806 3' -56.8 NC_006146.1 + 50147 0.69 0.695738
Target:  5'- gGCGCCGCCaGCGCUcgucgucCAGGAcCAGGg -3'
miRNA:   3'- aCGCGGCGGaCGCGGu------GUUCUaGUUU- -5'
28806 3' -56.8 NC_006146.1 + 157860 0.75 0.367342
Target:  5'- aGCGCCGCCuggaaaaguUGUGCCACAGGuagaggcUCGAGa -3'
miRNA:   3'- aCGCGGCGG---------ACGCGGUGUUCu------AGUUU- -5'
28806 3' -56.8 NC_006146.1 + 56498 0.68 0.735884
Target:  5'- aGCGCgCGCagucGgGCCGCGGGGUCGu- -3'
miRNA:   3'- aCGCG-GCGga--CgCGGUGUUCUAGUuu -5'
28806 3' -56.8 NC_006146.1 + 56322 0.71 0.572317
Target:  5'- --gGCCGUagCUGCGCCGCGAGAagGAGg -3'
miRNA:   3'- acgCGGCG--GACGCGGUGUUCUagUUU- -5'
28806 3' -56.8 NC_006146.1 + 120977 0.69 0.675302
Target:  5'- cGCGCUG-CUGgGCCACAGGuuAUCGGc -3'
miRNA:   3'- aCGCGGCgGACgCGGUGUUC--UAGUUu -5'
28806 3' -56.8 NC_006146.1 + 47218 0.68 0.768875
Target:  5'- cUG-GCCGCCUcCGCCACGaucuugagcuggcgcGGGUCGAc -3'
miRNA:   3'- -ACgCGGCGGAcGCGGUGU---------------UCUAGUUu -5'
28806 3' -56.8 NC_006146.1 + 125920 0.67 0.828502
Target:  5'- cUGCGCCuCCgucgGCGC-ACGAGGUCu-- -3'
miRNA:   3'- -ACGCGGcGGa---CGCGgUGUUCUAGuuu -5'
28806 3' -56.8 NC_006146.1 + 161265 0.71 0.582542
Target:  5'- cUGUGCCGCaUGCGCCugGgggagaccgAGGUCAc- -3'
miRNA:   3'- -ACGCGGCGgACGCGGugU---------UCUAGUuu -5'
28806 3' -56.8 NC_006146.1 + 50309 0.7 0.634067
Target:  5'- gGCGCCGCC-GgGCCuuguCcAGGUCAAAc -3'
miRNA:   3'- aCGCGGCGGaCgCGGu---GuUCUAGUUU- -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.