; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_dec11c_ensembl_72_GCA_000250155.2/genome/Escherichia_coli_dec11c_ensembl_72_GCA_000250155.2_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_dec11c_ensembl_72_GCA_000250155.2/genome/Escherichia_coli_dec11c_ensembl_72_GCA_000250155.2_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_dec11c_ensembl_72_GCA_000250155.2/genome/Escherichia_coli_dec11c_ensembl_72_GCA_000250155.2_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_dec11c_ensembl_72_GCA_000250155.2/genome/Escherichia_coli_dec11c_ensembl_72_GCA_000250155.2_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	5853
; Sum of sequence lengths      	17559
; discarded residues           	1	 (other letters than ACGT)
; discarded occurrences        	1	 (contain discarded residues)
; nb possible positions        	5852
; total oligo occurrences      	5852
; 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	0.8364661654135	4895
gtg	gtg	0.1122693096377	657
ttg	ttg	0.0480177717020	281
ctg	ctg	0.0005126452495	3
att	att	0.0003417634997	2
tac	tac	0.0003417634997	2
gac	gac	0.0003417634997	2
ggc	ggc	0.0001708817498	1
ttt	ttt	0.0001708817498	1
cgc	cgc	0.0001708817498	1
cag	cag	0.0001708817498	1
gag	gag	0.0001708817498	1
act	act	0.0001708817498	1
acg	acg	0.0001708817498	1
gta	gta	0.0001708817498	1
cac	cac	0.0001708817498	1
ccc	ccc	0.0001708817498	1
; Host name	jolitorax
; Job started	2013-09-30.123432
; Job done	2013-09-30.123433
; Seconds	1.58
;	user	1.58
;	system	0.09
;	cuser	0
;	csystem	0