miRNA display CGI


Results 1 - 20 of 25 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
16309 5' -58.1 NC_004084.1 + 41641 0.74 0.178418
Target:  5'- gGACAUCGACGUCGAGUucaaacgccGGGCGAa-- -3'
miRNA:   3'- -UUGUAGCUGCGGCUCGu--------CCCGCUcaa -5'
16309 5' -58.1 NC_004084.1 + 49849 0.66 0.538854
Target:  5'- -uCGUCGACGUcgCGAGCGagauccGGCGAGUc -3'
miRNA:   3'- uuGUAGCUGCG--GCUCGUc-----CCGCUCAa -5'
16309 5' -58.1 NC_004084.1 + 57132 0.66 0.538854
Target:  5'- -uCAUCGAgcgaGCCGGGCAuccccGGGCGAu-- -3'
miRNA:   3'- uuGUAGCUg---CGGCUCGU-----CCCGCUcaa -5'
16309 5' -58.1 NC_004084.1 + 47122 0.66 0.538854
Target:  5'- uGCAUccggugCGACGCCGAGCgagaGGGGCa---- -3'
miRNA:   3'- uUGUA------GCUGCGGCUCG----UCCCGcucaa -5'
16309 5' -58.1 NC_004084.1 + 7423 0.66 0.528254
Target:  5'- cGACGagggCGAUGCCGA-CGGuGGCGAGa- -3'
miRNA:   3'- -UUGUa---GCUGCGGCUcGUC-CCGCUCaa -5'
16309 5' -58.1 NC_004084.1 + 35461 0.66 0.528254
Target:  5'- uGACAUCGAC-CagGAGCAGGuCGAGg- -3'
miRNA:   3'- -UUGUAGCUGcGg-CUCGUCCcGCUCaa -5'
16309 5' -58.1 NC_004084.1 + 57000 0.66 0.517731
Target:  5'- gGACggCGACGCCGAGaauGGCGAc-- -3'
miRNA:   3'- -UUGuaGCUGCGGCUCgucCCGCUcaa -5'
16309 5' -58.1 NC_004084.1 + 22179 0.67 0.44675
Target:  5'- gGACGUCGAC-CCG-GUAGG-CGAGUUc -3'
miRNA:   3'- -UUGUAGCUGcGGCuCGUCCcGCUCAA- -5'
16309 5' -58.1 NC_004084.1 + 39049 0.67 0.44675
Target:  5'- cAGCAUC-AUGCCGAGUacuacgAGGGCGAu-- -3'
miRNA:   3'- -UUGUAGcUGCGGCUCG------UCCCGCUcaa -5'
16309 5' -58.1 NC_004084.1 + 7949 0.68 0.427473
Target:  5'- cAACAUCGGCgaacgacaccGCCGAccGCAGgacgaGGCGAGUg -3'
miRNA:   3'- -UUGUAGCUG----------CGGCU--CGUC-----CCGCUCAa -5'
16309 5' -58.1 NC_004084.1 + 47387 0.68 0.408697
Target:  5'- -uCGUCGACGgCGAGCuccAGGGCGcGa- -3'
miRNA:   3'- uuGUAGCUGCgGCUCG---UCCCGCuCaa -5'
16309 5' -58.1 NC_004084.1 + 29221 0.73 0.209429
Target:  5'- cGCGUCGACGuuGuucGC-GGGCGAGUa -3'
miRNA:   3'- uUGUAGCUGCggCu--CGuCCCGCUCAa -5'
16309 5' -58.1 NC_004084.1 + 30578 0.71 0.285398
Target:  5'- cGACgGUCGGCGaaCCgGAGCGGGGUGAGg- -3'
miRNA:   3'- -UUG-UAGCUGC--GG-CUCGUCCCGCUCaa -5'
16309 5' -58.1 NC_004084.1 + 39293 0.7 0.31516
Target:  5'- gGAC-UCGAuCGUCGAGCaccgagAGGGCGAGg- -3'
miRNA:   3'- -UUGuAGCU-GCGGCUCG------UCCCGCUCaa -5'
16309 5' -58.1 NC_004084.1 + 7394 0.7 0.330899
Target:  5'- cGCAUCGACgaGCUGAGCAaGGCGAu-- -3'
miRNA:   3'- uUGUAGCUG--CGGCUCGUcCCGCUcaa -5'
16309 5' -58.1 NC_004084.1 + 11722 0.69 0.364085
Target:  5'- aGAgAUgGGCGCUGAGCAGuGGCGcGUc -3'
miRNA:   3'- -UUgUAgCUGCGGCUCGUC-CCGCuCAa -5'
16309 5' -58.1 NC_004084.1 + 56911 0.69 0.381521
Target:  5'- uGCAUCGGCuUCGAGCucgAGGGCGAcGUc -3'
miRNA:   3'- uUGUAGCUGcGGCUCG---UCCCGCU-CAa -5'
16309 5' -58.1 NC_004084.1 + 5328 0.68 0.390445
Target:  5'- cGAC-UCGAagaucacguCGCCGAGCGGgcGGCGAGg- -3'
miRNA:   3'- -UUGuAGCU---------GCGGCUCGUC--CCGCUCaa -5'
16309 5' -58.1 NC_004084.1 + 29226 1.02 0.001354
Target:  5'- gAACAUCGACGCCGAGCAGGGCGAGUUc -3'
miRNA:   3'- -UUGUAGCUGCGGCUCGUCCCGCUCAA- -5'
16309 5' -58.1 NC_004084.1 + 41303 0.67 0.440916
Target:  5'- -uCAUCGACGUccuggagcggaccggCGAGCGcGGGUGAGa- -3'
miRNA:   3'- uuGUAGCUGCG---------------GCUCGU-CCCGCUCaa -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.