; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_dec1e_ensembl_72_GCA_000249135.2/genome/Escherichia_coli_dec1e_ensembl_72_GCA_000249135.2_stop_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_dec1e_ensembl_72_GCA_000249135.2/genome/Escherichia_coli_dec1e_ensembl_72_GCA_000249135.2_stop_codon_frequencies ; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42. ; Program version 1.169 ; Slow counting mode ; Oligomer length 3 ; Input file $RSAT/public_html/data/genomes/Escherichia_coli_dec1e_ensembl_72_GCA_000249135.2/genome/Escherichia_coli_dec1e_ensembl_72_GCA_000249135.2_stop_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Escherichia_coli_dec1e_ensembl_72_GCA_000249135.2/genome/Escherichia_coli_dec1e_ensembl_72_GCA_000249135.2_stop_codon_frequencies ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 5288 ; Sum of sequence lengths 15864 ; discarded residues (other letters than ACGT) ; discarded occurrences (contain discarded residues) ; nb possible positions 5288 ; total oligo occurrences 5288 ; alphabet size 4 ; nb possible oligomers 64 ; oligomers tested for significance 0 ; ; column headers ; 1 seq oligomer sequence ; 2 id oligomer identifier ; 3 obs_freq observed relative frequency ; 4 occ observed occurrences #seq id obs_freq occ taa taa 0.5877458396369 3108 tga tga 0.3277231467474 1733 tag tag 0.0813161875946 430 tgg tgg 0.0005673222390 3 ggc ggc 0.0003782148260 2 ttt ttt 0.0003782148260 2 ccg ccg 0.0001891074130 1 gag gag 0.0001891074130 1 ctc ctc 0.0001891074130 1 aat aat 0.0001891074130 1 cct cct 0.0001891074130 1 cgg cgg 0.0001891074130 1 tgc tgc 0.0001891074130 1 gac gac 0.0001891074130 1 gtt gtt 0.0001891074130 1 aca aca 0.0001891074130 1 ; Host name jolitorax ; Job started 2013-09-30.153639 ; Job done 2013-09-30.153639 ; Seconds 1.78 ; user 1.78 ; system 0.11 ; cuser 0 ; csystem 0