miRNA display CGI


Results 1 - 20 of 28 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
28120 5' -58.8 NC_005887.1 + 33617 0.66 0.466848
Target:  5'- aGCGCGGCguggucuucgaacuuCCCGuAGCG-CGCGCUGc- -3'
miRNA:   3'- cCGUGCUG---------------GGGC-UCGCaGUGCGACuu -5'
28120 5' -58.8 NC_005887.1 + 37465 0.66 0.462853
Target:  5'- aGGCagucGCGACCgCGcAGCGcCA-GCUGAAg -3'
miRNA:   3'- -CCG----UGCUGGgGC-UCGCaGUgCGACUU- -5'
28120 5' -58.8 NC_005887.1 + 21316 0.66 0.443152
Target:  5'- cGGUGC--CCCCGAGgGUCgauGCGUUGAu -3'
miRNA:   3'- -CCGUGcuGGGGCUCgCAG---UGCGACUu -5'
28120 5' -58.8 NC_005887.1 + 11943 0.66 0.441208
Target:  5'- cGGCGCugccgaacgacgaaaGACCgCCGAGCGUCGaaaacgauccgcccgUGCUGc- -3'
miRNA:   3'- -CCGUG---------------CUGG-GGCUCGCAGU---------------GCGACuu -5'
28120 5' -58.8 NC_005887.1 + 26829 0.66 0.433481
Target:  5'- uGCGCGugCgCGAGCGggCGCGuCUGc- -3'
miRNA:   3'- cCGUGCugGgGCUCGCa-GUGC-GACuu -5'
28120 5' -58.8 NC_005887.1 + 1000 0.66 0.423933
Target:  5'- uGC-CGGCCgCCGuGCG-CGCGCUGu- -3'
miRNA:   3'- cCGuGCUGG-GGCuCGCaGUGCGACuu -5'
28120 5' -58.8 NC_005887.1 + 5135 0.66 0.423933
Target:  5'- cGGCAUGACCgCGcugcccgacgucGGCG-CGcCGCUGAu -3'
miRNA:   3'- -CCGUGCUGGgGC------------UCGCaGU-GCGACUu -5'
28120 5' -58.8 NC_005887.1 + 42000 0.66 0.423933
Target:  5'- cGGCcuGCGGCCCacguCGAGUGUCGcCGCg--- -3'
miRNA:   3'- -CCG--UGCUGGG----GCUCGCAGU-GCGacuu -5'
28120 5' -58.8 NC_005887.1 + 41620 0.67 0.414513
Target:  5'- cGGCGCGGCCCgUGAggaucugcuGCGUCuGCGCg--- -3'
miRNA:   3'- -CCGUGCUGGG-GCU---------CGCAG-UGCGacuu -5'
28120 5' -58.8 NC_005887.1 + 9496 0.67 0.411711
Target:  5'- cGGC-CGACCCCGGcauGCugccgaacaccgucGUCACGCUc-- -3'
miRNA:   3'- -CCGuGCUGGGGCU---CG--------------CAGUGCGAcuu -5'
28120 5' -58.8 NC_005887.1 + 12868 0.67 0.405222
Target:  5'- aGGCACGACCguggcaggugCCGuGCG-CGaGCUGAu -3'
miRNA:   3'- -CCGUGCUGG----------GGCuCGCaGUgCGACUu -5'
28120 5' -58.8 NC_005887.1 + 18210 0.67 0.405222
Target:  5'- cGGCACGACgUCG-GCGgccCGCGCUu-- -3'
miRNA:   3'- -CCGUGCUGgGGCuCGCa--GUGCGAcuu -5'
28120 5' -58.8 NC_005887.1 + 35791 0.67 0.396063
Target:  5'- gGGcCACGACCgcgaCCGAGCuG-CACGCgUGGAu -3'
miRNA:   3'- -CC-GUGCUGG----GGCUCG-CaGUGCG-ACUU- -5'
28120 5' -58.8 NC_005887.1 + 32805 0.67 0.387039
Target:  5'- cGGCGCG-CaCgCGAGCGcCGCGCUa-- -3'
miRNA:   3'- -CCGUGCuG-GgGCUCGCaGUGCGAcuu -5'
28120 5' -58.8 NC_005887.1 + 40362 0.68 0.360792
Target:  5'- aGCGCGGCCgugCCGcuCGUCGCGCgcgagGAAa -3'
miRNA:   3'- cCGUGCUGG---GGCucGCAGUGCGa----CUU- -5'
28120 5' -58.8 NC_005887.1 + 36049 0.68 0.343996
Target:  5'- aGGCGCaaGGCCUCGAcGCGcUCGCGCa--- -3'
miRNA:   3'- -CCGUG--CUGGGGCU-CGC-AGUGCGacuu -5'
28120 5' -58.8 NC_005887.1 + 21653 0.68 0.343996
Target:  5'- cGC-CGACCaaucugaCGGGCGUguCGCUGAc -3'
miRNA:   3'- cCGuGCUGGg------GCUCGCAguGCGACUu -5'
28120 5' -58.8 NC_005887.1 + 30480 0.68 0.32777
Target:  5'- uGCGCGACgcggCCCGuGCGUUGCGCa--- -3'
miRNA:   3'- cCGUGCUG----GGGCuCGCAGUGCGacuu -5'
28120 5' -58.8 NC_005887.1 + 19572 0.69 0.297038
Target:  5'- aGGCACG-UCgaGcAGCGUCACGCUGu- -3'
miRNA:   3'- -CCGUGCuGGggC-UCGCAGUGCGACuu -5'
28120 5' -58.8 NC_005887.1 + 15006 0.69 0.297038
Target:  5'- aGGCGUGcCgCCCGAGCugaugcUCGCGCUGAAg -3'
miRNA:   3'- -CCGUGCuG-GGGCUCGc-----AGUGCGACUU- -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.