miRNA display CGI


Results 1 - 20 of 49 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
15880 3' -57.3 NC_004065.1 + 53872 1 0.01533
Target:  5'- cUCAGCAGACGGACGCUCCUC-GUCCGa -3'
miRNA:   3'- -AGUCGUCUGCCUGCGAGGAGaCAGGC- -5'
15880 3' -57.3 NC_004065.1 + 64356 0.66 0.916382
Target:  5'- -uGGCAGAuccucuCGGAuCGCgUCCugcaggcUCUGUCCGa -3'
miRNA:   3'- agUCGUCU------GCCU-GCG-AGG-------AGACAGGC- -5'
15880 3' -57.3 NC_004065.1 + 54508 0.66 0.927551
Target:  5'- gCGGCGuuacucuuucGGCGGACGCg-UUCUGUCUa -3'
miRNA:   3'- aGUCGU----------CUGCCUGCGagGAGACAGGc -5'
15880 3' -57.3 NC_004065.1 + 86856 0.66 0.932526
Target:  5'- cUCGGCGGACaGGAUGaagUCCUCgucGUCa- -3'
miRNA:   3'- -AGUCGUCUG-CCUGCg--AGGAGa--CAGgc -5'
15880 3' -57.3 NC_004065.1 + 175386 0.71 0.730041
Target:  5'- gCAGCAGGCGGACGacgaUCCcccaCcGUCCu -3'
miRNA:   3'- aGUCGUCUGCCUGCg---AGGa---GaCAGGc -5'
15880 3' -57.3 NC_004065.1 + 157807 0.7 0.739455
Target:  5'- aUCuGCGGGCGGAUG-UCCUCcugcGUCCa -3'
miRNA:   3'- -AGuCGUCUGCCUGCgAGGAGa---CAGGc -5'
15880 3' -57.3 NC_004065.1 + 201492 0.68 0.835533
Target:  5'- gCAGCAugcGGCGGGCGCUaCUCUcGUCa- -3'
miRNA:   3'- aGUCGU---CUGCCUGCGAgGAGA-CAGgc -5'
15880 3' -57.3 NC_004065.1 + 151488 0.68 0.835533
Target:  5'- gCAGCGGcacGCGGACggGCUCCUCagcggUGUUCu -3'
miRNA:   3'- aGUCGUC---UGCCUG--CGAGGAG-----ACAGGc -5'
15880 3' -57.3 NC_004065.1 + 165263 0.68 0.872968
Target:  5'- --cGCAGGuCGGAgCGCUCCUUgg-CCGa -3'
miRNA:   3'- aguCGUCU-GCCU-GCGAGGAGacaGGC- -5'
15880 3' -57.3 NC_004065.1 + 110548 0.67 0.911299
Target:  5'- cUCGGUgaAGGUGGACGCUUCggCgGUCCGc -3'
miRNA:   3'- -AGUCG--UCUGCCUGCGAGGa-GaCAGGC- -5'
15880 3' -57.3 NC_004065.1 + 207388 0.67 0.879878
Target:  5'- aCAGCAGA---AUGCUCCUggGUCCGu -3'
miRNA:   3'- aGUCGUCUgccUGCGAGGAgaCAGGC- -5'
15880 3' -57.3 NC_004065.1 + 67521 0.68 0.843386
Target:  5'- cUCGuGCGGAUGuucaaccuaguGGCGCUCCUC-GUCCu -3'
miRNA:   3'- -AGU-CGUCUGC-----------CUGCGAGGAGaCAGGc -5'
15880 3' -57.3 NC_004065.1 + 53649 0.77 0.393445
Target:  5'- -gAGCAGAUGGugGCgCCUC-GUCCGc -3'
miRNA:   3'- agUCGUCUGCCugCGaGGAGaCAGGC- -5'
15880 3' -57.3 NC_004065.1 + 193920 0.67 0.883927
Target:  5'- gCAGCGGccccguugccgccACGGuuguuuccacuaacGcCGCUCCUCUGUUCGu -3'
miRNA:   3'- aGUCGUC-------------UGCC--------------U-GCGAGGAGACAGGC- -5'
15880 3' -57.3 NC_004065.1 + 115850 0.73 0.564413
Target:  5'- gCGGCcGGCGGcGCGCUCCUCagaGUCCc -3'
miRNA:   3'- aGUCGuCUGCC-UGCGAGGAGa--CAGGc -5'
15880 3' -57.3 NC_004065.1 + 165381 0.68 0.843386
Target:  5'- cCAGCAcGGCGGACGCgcggucgauggCCUuCUggaaGUCCGu -3'
miRNA:   3'- aGUCGU-CUGCCUGCGa----------GGA-GA----CAGGC- -5'
15880 3' -57.3 NC_004065.1 + 6748 0.67 0.905443
Target:  5'- gCGGCGGcacuCGGGuCGgUCCUCgugGUCCu -3'
miRNA:   3'- aGUCGUCu---GCCU-GCgAGGAGa--CAGGc -5'
15880 3' -57.3 NC_004065.1 + 90993 0.66 0.927041
Target:  5'- -uGGCGGACGGACuGCagcgUCUUCUugacgcgGUCCa -3'
miRNA:   3'- agUCGUCUGCCUG-CG----AGGAGA-------CAGGc -5'
15880 3' -57.3 NC_004065.1 + 133470 0.71 0.681957
Target:  5'- gUCGGCGGACGaGuccaGCGaCUCCUC-GUCCa -3'
miRNA:   3'- -AGUCGUCUGC-C----UGC-GAGGAGaCAGGc -5'
15880 3' -57.3 NC_004065.1 + 35079 0.69 0.810974
Target:  5'- cCAGCuggcgAGACGGGgGCUgUCUCUGUgCGa -3'
miRNA:   3'- aGUCG-----UCUGCCUgCGA-GGAGACAgGC- -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.