; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_str_k_12_substr_mg1655_ensembl_GCA_000005845.1_72/genome/Escherichia_coli_str_k_12_substr_mg1655_ensembl_GCA_000005845.1_72_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_str_k_12_substr_mg1655_ensembl_GCA_000005845.1_72/genome/Escherichia_coli_str_k_12_substr_mg1655_ensembl_GCA_000005845.1_72_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_str_k_12_substr_mg1655_ensembl_GCA_000005845.1_72/genome/Escherichia_coli_str_k_12_substr_mg1655_ensembl_GCA_000005845.1_72_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_str_k_12_substr_mg1655_ensembl_GCA_000005845.1_72/genome/Escherichia_coli_str_k_12_substr_mg1655_ensembl_GCA_000005845.1_72_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	4146
; Sum of sequence lengths      	12438
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	4146
; total oligo occurrences      	4146
; 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	0.9056922334781	3755
gtg	gtg	0.0764592378196	317
ttg	ttg	0.0168837433671	70
att	att	0.0004823926676	2
ctg	ctg	0.0004823926676	2
; Host name	pedagogix
; Job started	2013-09-29.214857
; Job done	2013-09-29.214857
; Seconds	0.5
;	user	0.5
;	system	0.02
;	cuser	0
;	csystem	0