miRNA display CGI


Results 1 - 20 of 21 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
20543 3' -48.8 NC_004688.1 + 102704 0.66 0.996483
Target:  5'- ------aCGCAcUCGCguuccuuauguuccgACGCGCGGGCg -3'
miRNA:   3'- cuuuuugGCGUaAGUG---------------UGUGCGCCUG- -5'
20543 3' -48.8 NC_004688.1 + 101097 0.66 0.996237
Target:  5'- -uGGAGCUGCGg--GCGCugGUGGAg -3'
miRNA:   3'- cuUUUUGGCGUaagUGUGugCGCCUg -5'
20543 3' -48.8 NC_004688.1 + 52585 0.66 0.996237
Target:  5'- -cGAGGCgCGCAUUCACGC-UGCuGAUc -3'
miRNA:   3'- cuUUUUG-GCGUAAGUGUGuGCGcCUG- -5'
20543 3' -48.8 NC_004688.1 + 63413 0.66 0.993912
Target:  5'- ---cGGCCGCGUUCACucuucgaucccCGCGCaaucaGGGCg -3'
miRNA:   3'- cuuuUUGGCGUAAGUGu----------GUGCG-----CCUG- -5'
20543 3' -48.8 NC_004688.1 + 38741 0.67 0.988704
Target:  5'- gGAGGAACCcauagccucgcgagGCAccCACACGCGgGGAa -3'
miRNA:   3'- -CUUUUUGG--------------CGUaaGUGUGUGCgCCUg -5'
20543 3' -48.8 NC_004688.1 + 28193 0.67 0.9876
Target:  5'- cGGGAAGCCGCug-CGCaugacgguguACugGCGGuCg -3'
miRNA:   3'- -CUUUUUGGCGuaaGUG----------UGugCGCCuG- -5'
20543 3' -48.8 NC_004688.1 + 35588 0.68 0.98588
Target:  5'- -cGGAGCCuGCGUUCuC-CAUGCGGAa -3'
miRNA:   3'- cuUUUUGG-CGUAAGuGuGUGCGCCUg -5'
20543 3' -48.8 NC_004688.1 + 69109 0.68 0.983983
Target:  5'- -uGAAGCCGC--UCGCACucaaGCGGGg -3'
miRNA:   3'- cuUUUUGGCGuaAGUGUGug--CGCCUg -5'
20543 3' -48.8 NC_004688.1 + 97926 0.68 0.983983
Target:  5'- ----cGCCGCAgucgaCGCACucccgccgccccGCGCGGGCc -3'
miRNA:   3'- cuuuuUGGCGUaa---GUGUG------------UGCGCCUG- -5'
20543 3' -48.8 NC_004688.1 + 69309 0.68 0.982755
Target:  5'- ---cGGCCGCAgcgcUCACACAgGCcgucggcccgauccuGGACa -3'
miRNA:   3'- cuuuUUGGCGUa---AGUGUGUgCG---------------CCUG- -5'
20543 3' -48.8 NC_004688.1 + 57218 0.68 0.981898
Target:  5'- ----cACCGUcgUCGCAuCACcCGGGCg -3'
miRNA:   3'- cuuuuUGGCGuaAGUGU-GUGcGCCUG- -5'
20543 3' -48.8 NC_004688.1 + 39468 0.68 0.977128
Target:  5'- uGAAGGCCGCGU------ACGCGGACg -3'
miRNA:   3'- cUUUUUGGCGUAagugugUGCGCCUG- -5'
20543 3' -48.8 NC_004688.1 + 42451 0.69 0.96492
Target:  5'- aGAGcAGCCGCuguucugcgUCACucaAUGCGGACa -3'
miRNA:   3'- -CUUuUUGGCGua-------AGUGug-UGCGCCUG- -5'
20543 3' -48.8 NC_004688.1 + 63371 0.69 0.961264
Target:  5'- ----cACCGCGUUCGcCACACGCcaucccucggGGAg -3'
miRNA:   3'- cuuuuUGGCGUAAGU-GUGUGCG----------CCUg -5'
20543 3' -48.8 NC_004688.1 + 56987 0.7 0.957353
Target:  5'- --uGGAUUGUGUUCACGgGgGCGGGCa -3'
miRNA:   3'- cuuUUUGGCGUAAGUGUgUgCGCCUG- -5'
20543 3' -48.8 NC_004688.1 + 20730 0.7 0.957353
Target:  5'- gGAGuuGCCGCggUUACGCagcgacauGCGCGGGa -3'
miRNA:   3'- -CUUuuUGGCGuaAGUGUG--------UGCGCCUg -5'
20543 3' -48.8 NC_004688.1 + 46832 0.7 0.94403
Target:  5'- -----cCCGCAgUUCuCGCACGCGGGg -3'
miRNA:   3'- cuuuuuGGCGU-AAGuGUGUGCGCCUg -5'
20543 3' -48.8 NC_004688.1 + 8379 0.71 0.916332
Target:  5'- cGggGAuugguGgCGCGUcuUCcCACGCGCGGACu -3'
miRNA:   3'- -CuuUU-----UgGCGUA--AGuGUGUGCGCCUG- -5'
20543 3' -48.8 NC_004688.1 + 98474 0.71 0.909958
Target:  5'- aGAAuguAACCGCG-UCAUcUACGUGGGCg -3'
miRNA:   3'- -CUUu--UUGGCGUaAGUGuGUGCGCCUG- -5'
20543 3' -48.8 NC_004688.1 + 25571 0.74 0.803913
Target:  5'- uGAAGGccGCCGCAUUCGCG-AUGgGGGCg -3'
miRNA:   3'- -CUUUU--UGGCGUAAGUGUgUGCgCCUG- -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.