; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_ec4196_ensembl_72_GCA_000267445.1/genome/Escherichia_coli_ec4196_ensembl_72_GCA_000267445.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_ec4196_ensembl_72_GCA_000267445.1/genome/Escherichia_coli_ec4196_ensembl_72_GCA_000267445.1_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_ec4196_ensembl_72_GCA_000267445.1/genome/Escherichia_coli_ec4196_ensembl_72_GCA_000267445.1_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Escherichia_coli_ec4196_ensembl_72_GCA_000267445.1/genome/Escherichia_coli_ec4196_ensembl_72_GCA_000267445.1_start_codon_frequencies ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 4171 ; Sum of sequence lengths 12513 ; discarded residues (other letters than ACGT) ; discarded occurrences (contain discarded residues) ; nb possible positions 4171 ; total oligo occurrences 4171 ; 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 0.8115559817789 3385 gtg gtg 0.1162790697674 485 ttg ttg 0.0376408535123 157 gat gat 0.0023975065931 10 cag cag 0.0023975065931 10 aaa aaa 0.0023975065931 10 ctg ctg 0.0019180052745 8 ggt ggt 0.0016782546152 7 gaa gaa 0.0014385039559 6 gcg gcg 0.0011987532966 5 cgt cgt 0.0011987532966 5 gag gag 0.0011987532966 5 gcc gcc 0.0011987532966 5 att att 0.0009590026373 4 cgc cgc 0.0009590026373 4 gac gac 0.0009590026373 4 ggc ggc 0.0009590026373 4 ccg ccg 0.0009590026373 4 ttt ttt 0.0007192519779 3 aac aac 0.0007192519779 3 tta tta 0.0007192519779 3 aat aat 0.0007192519779 3 tgc tgc 0.0007192519779 3 gca gca 0.0007192519779 3 acc acc 0.0007192519779 3 aag aag 0.0007192519779 3 cgg cgg 0.0007192519779 3 atc atc 0.0007192519779 3 tct tct 0.0004795013186 2 tcc tcc 0.0004795013186 2 tca tca 0.0004795013186 2 gtt gtt 0.0004795013186 2 agt agt 0.0004795013186 2 tgt tgt 0.0002397506593 1 cca cca 0.0002397506593 1 ctt ctt 0.0002397506593 1 acg acg 0.0002397506593 1 gta gta 0.0002397506593 1 tac tac 0.0002397506593 1 ggg ggg 0.0002397506593 1 tcg tcg 0.0002397506593 1 cat cat 0.0002397506593 1 gtc gtc 0.0002397506593 1 aga aga 0.0002397506593 1 ata ata 0.0002397506593 1 cac cac 0.0002397506593 1 ; Host name jolitorax ; Job started 2013-10-01.001343 ; Job done 2013-10-01.001343 ; Seconds 1.74 ; user 1.74 ; system 0.06 ; cuser 0 ; csystem 0