; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_5_0959_ensembl_72_GCA_000194395.2/genome/Escherichia_coli_5_0959_ensembl_72_GCA_000194395.2_stop_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_5_0959_ensembl_72_GCA_000194395.2/genome/Escherichia_coli_5_0959_ensembl_72_GCA_000194395.2_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_5_0959_ensembl_72_GCA_000194395.2/genome/Escherichia_coli_5_0959_ensembl_72_GCA_000194395.2_stop_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Escherichia_coli_5_0959_ensembl_72_GCA_000194395.2/genome/Escherichia_coli_5_0959_ensembl_72_GCA_000194395.2_stop_codon_frequencies ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 5537 ; Sum of sequence lengths 16611 ; discarded residues (other letters than ACGT) ; discarded occurrences (contain discarded residues) ; nb possible positions 5537 ; total oligo occurrences 5537 ; 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 0.5875022575402 3253 tga tga 0.3297814701102 1826 tag tag 0.0791042080549 438 gaa gaa 0.0003612064295 2 ctg ctg 0.0003612064295 2 cat cat 0.0003612064295 2 aaa aaa 0.0003612064295 2 ttt ttt 0.0001806032147 1 gca gca 0.0001806032147 1 cgc cgc 0.0001806032147 1 gag gag 0.0001806032147 1 gcg gcg 0.0001806032147 1 aac aac 0.0001806032147 1 ctc ctc 0.0001806032147 1 cgt cgt 0.0001806032147 1 gtg gtg 0.0001806032147 1 gtt gtt 0.0001806032147 1 agc agc 0.0001806032147 1 gcc gcc 0.0001806032147 1 ; Host name jolitorax ; Job started 2013-09-30.042554 ; Job done 2013-09-30.042555 ; Seconds 1.87 ; user 1.87 ; system 0.09 ; cuser 0 ; csystem 0.01