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
7219 3' -57.4 NC_001900.1 + 33475 0.66 0.547429
Target:  5'- cCCUccGGGGUAgA-CAGCCUgGUGGCu -3'
miRNA:   3'- uGGA--UCCCGUgUaGUUGGAgCGCCGc -5'
7219 3' -57.4 NC_001900.1 + 31398 0.66 0.526134
Target:  5'- uGCCgAGGGU--GUCGGCCagCGUGGUGa -3'
miRNA:   3'- -UGGaUCCCGugUAGUUGGa-GCGCCGC- -5'
7219 3' -57.4 NC_001900.1 + 46623 0.67 0.505158
Target:  5'- aGCC-GGGGC-CGUCGACCUCacacagccaccCGGCa -3'
miRNA:   3'- -UGGaUCCCGuGUAGUUGGAGc----------GCCGc -5'
7219 3' -57.4 NC_001900.1 + 6408 0.67 0.494805
Target:  5'- cACCaGGGGCgucgaGCAg-GugCUCGCGGCc -3'
miRNA:   3'- -UGGaUCCCG-----UGUagUugGAGCGCCGc -5'
7219 3' -57.4 NC_001900.1 + 48562 0.67 0.48864
Target:  5'- cACgUAGGGCACGUguggcaggccagacgCAACCcacuaGCGGCc -3'
miRNA:   3'- -UGgAUCCCGUGUA---------------GUUGGag---CGCCGc -5'
7219 3' -57.4 NC_001900.1 + 444 0.67 0.464353
Target:  5'- uACC--GGGCACAUaacgagCAGCCUaugcaCGCGGCu -3'
miRNA:   3'- -UGGauCCCGUGUA------GUUGGA-----GCGCCGc -5'
7219 3' -57.4 NC_001900.1 + 40711 0.68 0.454421
Target:  5'- cGCCUcGGGCG-AUCAAcagccCCUCGCGGa- -3'
miRNA:   3'- -UGGAuCCCGUgUAGUU-----GGAGCGCCgc -5'
7219 3' -57.4 NC_001900.1 + 31738 0.68 0.444604
Target:  5'- cACCUGGcGGUugaccGCAgugacCAACCgaccguUCGCGGCGg -3'
miRNA:   3'- -UGGAUC-CCG-----UGUa----GUUGG------AGCGCCGC- -5'
7219 3' -57.4 NC_001900.1 + 38594 0.69 0.370649
Target:  5'- gGCCUcuuccucgucccAGcGGCGCAUCu-CCUCGCgcucGGCGa -3'
miRNA:   3'- -UGGA------------UC-CCGUGUAGuuGGAGCG----CCGC- -5'
7219 3' -57.4 NC_001900.1 + 27463 0.69 0.362013
Target:  5'- aGCCUGGGGCcgagccGCA-CGGCCUUGagccggccguCGGCGa -3'
miRNA:   3'- -UGGAUCCCG------UGUaGUUGGAGC----------GCCGC- -5'
7219 3' -57.4 NC_001900.1 + 2950 0.7 0.353518
Target:  5'- gGCgaUGGaGGuCACAUCuACCuUCGCGGCGa -3'
miRNA:   3'- -UGg-AUC-CC-GUGUAGuUGG-AGCGCCGC- -5'
7219 3' -57.4 NC_001900.1 + 23645 0.7 0.353518
Target:  5'- cGCCUcGGGCACA-CGACUccgCGCauGGCGa -3'
miRNA:   3'- -UGGAuCCCGUGUaGUUGGa--GCG--CCGC- -5'
7219 3' -57.4 NC_001900.1 + 42966 0.72 0.262057
Target:  5'- cGCCUccgucgaGGGGgACGcgaAGCCUCGCGGCc -3'
miRNA:   3'- -UGGA-------UCCCgUGUag-UUGGAGCGCCGc -5'
7219 3' -57.4 NC_001900.1 + 8300 0.72 0.249579
Target:  5'- gGCCUGGuGGUgguucACggCGGCgCUCGCGGCGc -3'
miRNA:   3'- -UGGAUC-CCG-----UGuaGUUG-GAGCGCCGC- -5'
7219 3' -57.4 NC_001900.1 + 38700 0.74 0.172203
Target:  5'- aGCUUcGuGGCgGCGUCAGCCuUCGCGGCGu -3'
miRNA:   3'- -UGGAuC-CCG-UGUAGUUGG-AGCGCCGC- -5'
7219 3' -57.4 NC_001900.1 + 27413 0.76 0.127208
Target:  5'- uACCgaUGGGGCGCAUCAgcGCCUCGaCGGa- -3'
miRNA:   3'- -UGG--AUCCCGUGUAGU--UGGAGC-GCCgc -5'
7219 3' -57.4 NC_001900.1 + 5911 0.77 0.11373
Target:  5'- uCCUGGGGgACAUCAGCuCagGCGGCa -3'
miRNA:   3'- uGGAUCCCgUGUAGUUG-GagCGCCGc -5'
7219 3' -57.4 NC_001900.1 + 14710 1.08 0.000629
Target:  5'- aACCUAGGGCACAUCAACCUCGCGGCGu -3'
miRNA:   3'- -UGGAUCCCGUGUAGUUGGAGCGCCGC- -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.