miRNA display CGI


Results 1 - 20 of 22 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
8698 3' -58 NC_002229.2 + 138672 0.66 0.87697
Target:  5'- gGGGCaCgUGCaUGGGGCGUgGCGgGAGAu -3'
miRNA:   3'- -CCUG-GgACG-GCCUUGCGgUGUgCUCU- -5'
8698 3' -58 NC_002229.2 + 39 0.66 0.87697
Target:  5'- gGGGCaCgUGCaUGGGGCGUgGCGgGAGAu -3'
miRNA:   3'- -CCUG-GgACG-GCCUUGCGgUGUgCUCU- -5'
8698 3' -58 NC_002229.2 + 57734 0.66 0.86992
Target:  5'- aGGAgCUggUGUCGGAAuCGCgGCGCGAa- -3'
miRNA:   3'- -CCUgGG--ACGGCCUU-GCGgUGUGCUcu -5'
8698 3' -58 NC_002229.2 + 137743 0.66 0.86267
Target:  5'- gGGACCggGCUcGAGCGCCcaccucCGCGGGGg -3'
miRNA:   3'- -CCUGGgaCGGcCUUGCGGu-----GUGCUCU- -5'
8698 3' -58 NC_002229.2 + 968 0.66 0.86267
Target:  5'- gGGACCggGCUcGAGCGCCcaccucCGCGGGGg -3'
miRNA:   3'- -CCUGGgaCGGcCUUGCGGu-----GUGCUCU- -5'
8698 3' -58 NC_002229.2 + 126199 0.66 0.86267
Target:  5'- aGGACggcgagaaaUGCgGGGACGCCAgAUGAGc -3'
miRNA:   3'- -CCUGgg-------ACGgCCUUGCGGUgUGCUCu -5'
8698 3' -58 NC_002229.2 + 76663 0.67 0.839773
Target:  5'- cGAUgCCUGuuGGGAUGauGCACGAGAc -3'
miRNA:   3'- cCUG-GGACggCCUUGCggUGUGCUCU- -5'
8698 3' -58 NC_002229.2 + 135090 0.67 0.815284
Target:  5'- aGGCCUgauUGCUGGGACGCgG-AUGAGAg -3'
miRNA:   3'- cCUGGG---ACGGCCUUGCGgUgUGCUCU- -5'
8698 3' -58 NC_002229.2 + 167816 0.67 0.815284
Target:  5'- cGGCUCgGCCGGAcuugggaggACGCC-CACGuGGg -3'
miRNA:   3'- cCUGGGaCGGCCU---------UGCGGuGUGCuCU- -5'
8698 3' -58 NC_002229.2 + 144798 0.67 0.815284
Target:  5'- cGGCUCgGCCGGAcuugggaggACGCC-CACGuGGg -3'
miRNA:   3'- cCUGGGaCGGCCU---------UGCGGuGUGCuCU- -5'
8698 3' -58 NC_002229.2 + 36984 0.67 0.815284
Target:  5'- cGGAUuuUagCGGAAUGCCgaACACGAGAa -3'
miRNA:   3'- -CCUGggAcgGCCUUGCGG--UGUGCUCU- -5'
8698 3' -58 NC_002229.2 + 3622 0.67 0.815284
Target:  5'- aGGCCUgauUGCUGGGACGCgG-AUGAGAg -3'
miRNA:   3'- cCUGGG---ACGGCCUUGCGgUgUGCUCU- -5'
8698 3' -58 NC_002229.2 + 1050 0.68 0.780484
Target:  5'- aGGACUCggcGCCuGGGCGCCgGCACGGc- -3'
miRNA:   3'- -CCUGGGa--CGGcCUUGCGG-UGUGCUcu -5'
8698 3' -58 NC_002229.2 + 137662 0.68 0.780484
Target:  5'- aGGACUCggcGCCuGGGCGCCgGCACGGc- -3'
miRNA:   3'- -CCUGGGa--CGGcCUUGCGG-UGUGCUcu -5'
8698 3' -58 NC_002229.2 + 138352 0.7 0.676095
Target:  5'- gGGAgCC-GCCccagGGGGCGCCGCGgGGGGg -3'
miRNA:   3'- -CCUgGGaCGG----CCUUGCGGUGUgCUCU- -5'
8698 3' -58 NC_002229.2 + 359 0.7 0.676095
Target:  5'- gGGAgCC-GCCccagGGGGCGCCGCGgGGGGg -3'
miRNA:   3'- -CCUgGGaCGG----CCUUGCGGUGUgCUCU- -5'
8698 3' -58 NC_002229.2 + 147964 0.71 0.63357
Target:  5'- gGGGCCCgcgguaucgcagacUGCuCGGGugGCUGCGgGAGGg -3'
miRNA:   3'- -CCUGGG--------------ACG-GCCUugCGGUGUgCUCU- -5'
8698 3' -58 NC_002229.2 + 164650 0.71 0.63357
Target:  5'- gGGGCCCgcgguaucgcagacUGCuCGGGugGCUGCGgGAGGg -3'
miRNA:   3'- -CCUGGG--------------ACG-GCCUugCGGUGUgCUCU- -5'
8698 3' -58 NC_002229.2 + 137908 0.71 0.58708
Target:  5'- uGGugCCcGCUGG-GCGCCGCuCGGGGc -3'
miRNA:   3'- -CCugGGaCGGCCuUGCGGUGuGCUCU- -5'
8698 3' -58 NC_002229.2 + 804 0.71 0.58708
Target:  5'- uGGugCCcGCUGG-GCGCCGCuCGGGGc -3'
miRNA:   3'- -CCugGGaCGGCCuUGCGGUGuGCUCU- -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.