miRNA display CGI


Results 1 - 18 of 18 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
16180 3' -54.9 NC_004065.1 + 198881 0.66 0.975878
Target:  5'- gGCGGUGucgaugcccgaGUCGGAgaCGGAGACgGUGAc -3'
miRNA:   3'- aUGCCAC-----------CAGUCUg-GCUUCUGaCGCU- -5'
16180 3' -54.9 NC_004065.1 + 119446 0.66 0.975878
Target:  5'- -gUGGUGGUCgccgAGACCGAcGcCUGgCGGa -3'
miRNA:   3'- auGCCACCAG----UCUGGCUuCuGAC-GCU- -5'
16180 3' -54.9 NC_004065.1 + 228937 0.66 0.975878
Target:  5'- aGCGG-GGauuuccgagaagUCAGACCGAugagcgggaacGGACaGCGAu -3'
miRNA:   3'- aUGCCaCC------------AGUCUGGCU-----------UCUGaCGCU- -5'
16180 3' -54.9 NC_004065.1 + 134016 0.66 0.974881
Target:  5'- gGCGGUaGUgGGAagugcgauggcggCGGAGGCUGCGAu -3'
miRNA:   3'- aUGCCAcCAgUCUg------------GCUUCUGACGCU- -5'
16180 3' -54.9 NC_004065.1 + 136671 0.66 0.973329
Target:  5'- gACGGgcgGGUCuGGCCGgcGGCggGCc- -3'
miRNA:   3'- aUGCCa--CCAGuCUGGCuuCUGa-CGcu -5'
16180 3' -54.9 NC_004065.1 + 181040 0.66 0.973329
Target:  5'- aUACGGUGGUCuGugUGAuGAagGUGAg -3'
miRNA:   3'- -AUGCCACCAGuCugGCUuCUgaCGCU- -5'
16180 3' -54.9 NC_004065.1 + 47652 0.66 0.967656
Target:  5'- gAUGGUGGUCAGGCU--GGugUcGCa- -3'
miRNA:   3'- aUGCCACCAGUCUGGcuUCugA-CGcu -5'
16180 3' -54.9 NC_004065.1 + 188684 0.66 0.96452
Target:  5'- gACGGUcGUCAGGCCGA--ACUGaUGGc -3'
miRNA:   3'- aUGCCAcCAGUCUGGCUucUGAC-GCU- -5'
16180 3' -54.9 NC_004065.1 + 172090 0.67 0.957622
Target:  5'- --gGGUGGagGGGCCGggGGagGCGGc -3'
miRNA:   3'- augCCACCagUCUGGCuuCUgaCGCU- -5'
16180 3' -54.9 NC_004065.1 + 141628 0.67 0.949859
Target:  5'- gGCGGUGGcggcUCGgcGACgGAGGGCggugGCGGu -3'
miRNA:   3'- aUGCCACC----AGU--CUGgCUUCUGa---CGCU- -5'
16180 3' -54.9 NC_004065.1 + 127480 0.68 0.936533
Target:  5'- --aGGUGGUCGGGCgCGgcGGgaGCGu -3'
miRNA:   3'- augCCACCAGUCUG-GCuuCUgaCGCu -5'
16180 3' -54.9 NC_004065.1 + 102102 0.68 0.931634
Target:  5'- gGCGGcgaUGGcCGGACCGAGGuGC-GCGGu -3'
miRNA:   3'- aUGCC---ACCaGUCUGGCUUC-UGaCGCU- -5'
16180 3' -54.9 NC_004065.1 + 65315 0.7 0.847469
Target:  5'- -cCGcGUGGUgGGACCGgcGGCgGCGGc -3'
miRNA:   3'- auGC-CACCAgUCUGGCuuCUGaCGCU- -5'
16180 3' -54.9 NC_004065.1 + 229097 0.7 0.839534
Target:  5'- aGCGGUaaGGUCAGACCGGacggAGGgaGgGAa -3'
miRNA:   3'- aUGCCA--CCAGUCUGGCU----UCUgaCgCU- -5'
16180 3' -54.9 NC_004065.1 + 30030 0.71 0.814666
Target:  5'- cGCGGUGGUgaCGGGCacgaaCGAGGACaGCGGc -3'
miRNA:   3'- aUGCCACCA--GUCUG-----GCUUCUGaCGCU- -5'
16180 3' -54.9 NC_004065.1 + 159561 0.76 0.543408
Target:  5'- aGCGGUGGaaaaacuaggAGACCGGAGACUGCu- -3'
miRNA:   3'- aUGCCACCag--------UCUGGCUUCUGACGcu -5'
16180 3' -54.9 NC_004065.1 + 78281 0.76 0.521063
Target:  5'- gUGCGGUGGUCguagcggcucucgaGGGCCucGGACUGCGu -3'
miRNA:   3'- -AUGCCACCAG--------------UCUGGcuUCUGACGCu -5'
16180 3' -54.9 NC_004065.1 + 182685 1.07 0.007691
Target:  5'- cUACGGUGGUCAGACCGAAGACUGCGAc -3'
miRNA:   3'- -AUGCCACCAGUCUGGCUUCUGACGCU- -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.