miRNA display CGI


Results 1 - 20 of 27 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
12581 3' -47.5 NC_003345.1 + 288 1.11 0.008704
Target:  5'- uGAAAACGGCGGAUUCGGUAAGUACGGc -3'
miRNA:   3'- -CUUUUGCCGCCUAAGCCAUUCAUGCC- -5'
12581 3' -47.5 NC_003345.1 + 2309 0.87 0.239443
Target:  5'- gGAAAACGGCGGAUUCGGUGugaAGccccucGCGGa -3'
miRNA:   3'- -CUUUUGCCGCCUAAGCCAU---UCa-----UGCC- -5'
12581 3' -47.5 NC_003345.1 + 77575 0.77 0.67113
Target:  5'- uGAAAACGGCGGAUUCGGU-------- -3'
miRNA:   3'- -CUUUUGCCGCCUAAGCCAuucaugcc -5'
12581 3' -47.5 NC_003345.1 + 768 0.73 0.878654
Target:  5'- -cGAACGGuCGGGggCgGGUAAGUACGu -3'
miRNA:   3'- cuUUUGCC-GCCUaaG-CCAUUCAUGCc -5'
12581 3' -47.5 NC_003345.1 + 55758 0.73 0.886321
Target:  5'- --uGACGGCGGAUaCGGUcacggAAGUauucACGGc -3'
miRNA:   3'- cuuUUGCCGCCUAaGCCA-----UUCA----UGCC- -5'
12581 3' -47.5 NC_003345.1 + 64671 0.73 0.893719
Target:  5'- uGAGAGC-GCGGGUUCGGUAcGUAUc- -3'
miRNA:   3'- -CUUUUGcCGCCUAAGCCAUuCAUGcc -5'
12581 3' -47.5 NC_003345.1 + 75706 0.72 0.914247
Target:  5'- ---uGCGGCGGAggcuguucUCGGUGGGggagaaGCGGc -3'
miRNA:   3'- cuuuUGCCGCCUa-------AGCCAUUCa-----UGCC- -5'
12581 3' -47.5 NC_003345.1 + 59403 0.72 0.926515
Target:  5'- cGAAuuACGGCGGugcuggcUCGGguAGUACGGu -3'
miRNA:   3'- -CUUu-UGCCGCCua-----AGCCauUCAUGCC- -5'
12581 3' -47.5 NC_003345.1 + 60697 0.71 0.937635
Target:  5'- gGAAGGCGcG-GGAUUCGGcacGAGUGCGa -3'
miRNA:   3'- -CUUUUGC-CgCCUAAGCCa--UUCAUGCc -5'
12581 3' -47.5 NC_003345.1 + 36012 0.71 0.942767
Target:  5'- cGGAGACGGCGuuUcCGGUGaAGUGgGGa -3'
miRNA:   3'- -CUUUUGCCGCcuAaGCCAU-UCAUgCC- -5'
12581 3' -47.5 NC_003345.1 + 45444 0.7 0.956478
Target:  5'- aGAAGGCGGCGGuucagcUCGGUAucGUuaGCGa -3'
miRNA:   3'- -CUUUUGCCGCCua----AGCCAUu-CA--UGCc -5'
12581 3' -47.5 NC_003345.1 + 26555 0.7 0.964261
Target:  5'- --uAGCGGCGGA---GGUGGGU-CGGc -3'
miRNA:   3'- cuuUUGCCGCCUaagCCAUUCAuGCC- -5'
12581 3' -47.5 NC_003345.1 + 50778 0.69 0.976796
Target:  5'- uGGAAACGGCGGGgacgcuggCGG-GAGUAUa- -3'
miRNA:   3'- -CUUUUGCCGCCUaa------GCCaUUCAUGcc -5'
12581 3' -47.5 NC_003345.1 + 10255 0.68 0.983816
Target:  5'- uAGAGCGGCGGGagUGGcgaGAGUaaACGGc -3'
miRNA:   3'- cUUUUGCCGCCUaaGCCa--UUCA--UGCC- -5'
12581 3' -47.5 NC_003345.1 + 55826 0.68 0.985755
Target:  5'- aGAGAUGG-GGGUUCuGGUGguGGUGCGa -3'
miRNA:   3'- cUUUUGCCgCCUAAG-CCAU--UCAUGCc -5'
12581 3' -47.5 NC_003345.1 + 429 0.68 0.989095
Target:  5'- aGAGACGGaCGGAacCGGaGAG-ACGGa -3'
miRNA:   3'- cUUUUGCC-GCCUaaGCCaUUCaUGCC- -5'
12581 3' -47.5 NC_003345.1 + 50359 0.68 0.990518
Target:  5'- --cGGCGGUGGuggCGGUGgaGGUGCuGGc -3'
miRNA:   3'- cuuUUGCCGCCuaaGCCAU--UCAUG-CC- -5'
12581 3' -47.5 NC_003345.1 + 15411 0.67 0.992925
Target:  5'- aGAGAACGaGCGGA--UGG-AAG-ACGGa -3'
miRNA:   3'- -CUUUUGC-CGCCUaaGCCaUUCaUGCC- -5'
12581 3' -47.5 NC_003345.1 + 67259 0.67 0.99393
Target:  5'- --cGACGGUGGGagUGGUGGGaACGa -3'
miRNA:   3'- cuuUUGCCGCCUaaGCCAUUCaUGCc -5'
12581 3' -47.5 NC_003345.1 + 3388 0.67 0.99393
Target:  5'- aGAGAGCGGCGGAUUgCGaUGGaaGCGa -3'
miRNA:   3'- -CUUUUGCCGCCUAA-GCcAUUcaUGCc -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.