; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_93_0055_ensembl_72_GCA_000316445.1/genome/Escherichia_coli_93_0055_ensembl_72_GCA_000316445.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_93_0055_ensembl_72_GCA_000316445.1/genome/Escherichia_coli_93_0055_ensembl_72_GCA_000316445.1_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_93_0055_ensembl_72_GCA_000316445.1/genome/Escherichia_coli_93_0055_ensembl_72_GCA_000316445.1_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Escherichia_coli_93_0055_ensembl_72_GCA_000316445.1/genome/Escherichia_coli_93_0055_ensembl_72_GCA_000316445.1_start_codon_frequencies ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 2878 ; Sum of sequence lengths 8634 ; discarded residues (other letters than ACGT) ; discarded occurrences (contain discarded residues) ; nb possible positions 2878 ; total oligo occurrences 2878 ; 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 0.7998610145935 2302 gtg gtg 0.1282140375261 369 ttg ttg 0.0441278665740 127 cag cag 0.0017373175817 5 atc atc 0.0017373175817 5 ctg ctg 0.0013898540653 4 ggt ggt 0.0013898540653 4 gag gag 0.0013898540653 4 tat tat 0.0013898540653 4 gaa gaa 0.0010423905490 3 att att 0.0010423905490 3 gat gat 0.0010423905490 3 ggg ggg 0.0010423905490 3 ccg ccg 0.0010423905490 3 gcc gcc 0.0010423905490 3 ttt ttt 0.0006949270327 2 tta tta 0.0006949270327 2 acg acg 0.0006949270327 2 cgt cgt 0.0006949270327 2 tac tac 0.0006949270327 2 ggc ggc 0.0006949270327 2 tgg tgg 0.0006949270327 2 acc acc 0.0006949270327 2 aag aag 0.0006949270327 2 gga gga 0.0006949270327 2 cac cac 0.0006949270327 2 cca cca 0.0003474635163 1 cgc cgc 0.0003474635163 1 gcg gcg 0.0003474635163 1 tct tct 0.0003474635163 1 aat aat 0.0003474635163 1 caa caa 0.0003474635163 1 cga cga 0.0003474635163 1 gac gac 0.0003474635163 1 gca gca 0.0003474635163 1 tcg tcg 0.0003474635163 1 gtc gtc 0.0003474635163 1 tcc tcc 0.0003474635163 1 ctc ctc 0.0003474635163 1 aga aga 0.0003474635163 1 ; Host name jolitorax ; Job started 2013-09-30.062638 ; Job done 2013-09-30.062639 ; Seconds 1.52 ; user 1.52 ; system 0.05 ; cuser 0 ; csystem 0.01