; 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_start_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_start_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_start_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_start_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 atg atg 0.8445006321113 4676 gtg gtg 0.1047498645476 580 ttg ttg 0.0487628679791 270 gaa gaa 0.0003612064295 2 ctc ctc 0.0003612064295 2 ctg ctg 0.0001806032147 1 ccg ccg 0.0001806032147 1 acg acg 0.0001806032147 1 cag cag 0.0001806032147 1 cgg cgg 0.0001806032147 1 cta cta 0.0001806032147 1 gtt gtt 0.0001806032147 1 ; Host name jolitorax ; Job started 2013-09-30.042551 ; Job done 2013-09-30.042552 ; Seconds 1.8 ; user 1.8 ; system 0.09 ; cuser 0 ; csystem 0.01