miRNA display CGI


Results 1 - 20 of 38 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
28176 3' -54.5 NC_005887.1 + 25990 0.66 0.678909
Target:  5'- -gGCGACGCgguaCAGCuucacGGGCgGCGUCg -3'
miRNA:   3'- gaUGCUGCGaga-GUCGu----CUCG-CGUAG- -5'
28176 3' -54.5 NC_005887.1 + 39780 0.66 0.677779
Target:  5'- -cGCGGCGCUCgc-GCcGAucguugcGCGCGUCg -3'
miRNA:   3'- gaUGCUGCGAGaguCGuCU-------CGCGUAG- -5'
28176 3' -54.5 NC_005887.1 + 35658 0.66 0.677779
Target:  5'- gCU-CGACGCUgUCgacauacAGCAGcGCGCgAUCg -3'
miRNA:   3'- -GAuGCUGCGAgAG-------UCGUCuCGCG-UAG- -5'
28176 3' -54.5 NC_005887.1 + 7031 0.66 0.667589
Target:  5'- -cGCGGCGCgcggCAGUGGAGCGaugCa -3'
miRNA:   3'- gaUGCUGCGaga-GUCGUCUCGCguaG- -5'
28176 3' -54.5 NC_005887.1 + 11605 0.66 0.667589
Target:  5'- --uCGGCGCUCgacacgCAgguGCAGAGCGUg-- -3'
miRNA:   3'- gauGCUGCGAGa-----GU---CGUCUCGCGuag -5'
28176 3' -54.5 NC_005887.1 + 12642 0.66 0.644853
Target:  5'- cCUGCGACGCga-CGGCgAGuggcuGCGCGUg -3'
miRNA:   3'- -GAUGCUGCGagaGUCG-UCu----CGCGUAg -5'
28176 3' -54.5 NC_005887.1 + 29505 0.66 0.644853
Target:  5'- -gGCGGC-CUCgaCGGCGG-GCGCGUUg -3'
miRNA:   3'- gaUGCUGcGAGa-GUCGUCuCGCGUAG- -5'
28176 3' -54.5 NC_005887.1 + 39912 0.66 0.644853
Target:  5'- aUACGguGCGCgcagaUCgAGCcGGGCGCGUCg -3'
miRNA:   3'- gAUGC--UGCGag---AG-UCGuCUCGCGUAG- -5'
28176 3' -54.5 NC_005887.1 + 2487 0.66 0.622067
Target:  5'- -cGCGAgGCgCUCAGCGguGAGCG-GUCg -3'
miRNA:   3'- gaUGCUgCGaGAGUCGU--CUCGCgUAG- -5'
28176 3' -54.5 NC_005887.1 + 42079 0.66 0.622067
Target:  5'- -gACGAgCGCUgUCGcGUGGGGCGCGa- -3'
miRNA:   3'- gaUGCU-GCGAgAGU-CGUCUCGCGUag -5'
28176 3' -54.5 NC_005887.1 + 1491 0.67 0.610683
Target:  5'- gUGCGGCGCUCgcgCGGCGcGGC-CGUg -3'
miRNA:   3'- gAUGCUGCGAGa--GUCGUcUCGcGUAg -5'
28176 3' -54.5 NC_005887.1 + 22952 0.67 0.609545
Target:  5'- -cGCGgaccgauACGCUCUgCGGCAGcugcgcgagcauGGCGCGUUg -3'
miRNA:   3'- gaUGC-------UGCGAGA-GUCGUC------------UCGCGUAG- -5'
28176 3' -54.5 NC_005887.1 + 13798 0.67 0.599318
Target:  5'- -gGCGACGCcuacaaaUUCAGCAGcccGGCGCGc- -3'
miRNA:   3'- gaUGCUGCGa------GAGUCGUC---UCGCGUag -5'
28176 3' -54.5 NC_005887.1 + 27342 0.67 0.599318
Target:  5'- aCUGCGccACGCg--CAGCGGcGCGCAg- -3'
miRNA:   3'- -GAUGC--UGCGagaGUCGUCuCGCGUag -5'
28176 3' -54.5 NC_005887.1 + 4361 0.67 0.587984
Target:  5'- -gACGAUGCgCUCuGCuGAGaGCGUCg -3'
miRNA:   3'- gaUGCUGCGaGAGuCGuCUCgCGUAG- -5'
28176 3' -54.5 NC_005887.1 + 28792 0.67 0.587984
Target:  5'- --uCGGCcuGCUCg-GGCGGcAGCGCAUCg -3'
miRNA:   3'- gauGCUG--CGAGagUCGUC-UCGCGUAG- -5'
28176 3' -54.5 NC_005887.1 + 18414 0.67 0.587984
Target:  5'- -cGCGGCGCUCgucgUCAGCAcGAcgcugaucgGCGCgAUCu -3'
miRNA:   3'- gaUGCUGCGAG----AGUCGU-CU---------CGCG-UAG- -5'
28176 3' -54.5 NC_005887.1 + 14633 0.67 0.576689
Target:  5'- -gGCG-CGCUCaCGGCAGccGGCGCGg- -3'
miRNA:   3'- gaUGCuGCGAGaGUCGUC--UCGCGUag -5'
28176 3' -54.5 NC_005887.1 + 14090 0.67 0.565444
Target:  5'- -gAUGAUGCUCgUCAGUGGugaAGCGCcgCu -3'
miRNA:   3'- gaUGCUGCGAG-AGUCGUC---UCGCGuaG- -5'
28176 3' -54.5 NC_005887.1 + 26407 0.67 0.565444
Target:  5'- gUGCGGCGCg--UGGCc-GGCGCAUCg -3'
miRNA:   3'- gAUGCUGCGagaGUCGucUCGCGUAG- -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.