; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_99_0678_ensembl_72_GCA_000316545.1/genome/Escherichia_coli_99_0678_ensembl_72_GCA_000316545.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_99_0678_ensembl_72_GCA_000316545.1/genome/Escherichia_coli_99_0678_ensembl_72_GCA_000316545.1_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_99_0678_ensembl_72_GCA_000316545.1/genome/Escherichia_coli_99_0678_ensembl_72_GCA_000316545.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_99_0678_ensembl_72_GCA_000316545.1/genome/Escherichia_coli_99_0678_ensembl_72_GCA_000316545.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	5289
; Sum of sequence lengths      	15867
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	5289
; total oligo occurrences      	5289
; 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	0.8496880317640	4494
gtg	gtg	0.1032331253545	546
ttg	ttg	0.0421629797693	223
ctg	ctg	0.0005672149745	3
gaa	gaa	0.0003781433163	2
ggt	ggt	0.0003781433163	2
gag	gag	0.0003781433163	2
aaa	aaa	0.0003781433163	2
gct	gct	0.0003781433163	2
cgg	cgg	0.0003781433163	2
cac	cac	0.0003781433163	2
atc	atc	0.0003781433163	2
ggc	ggc	0.0001890716582	1
agg	agg	0.0001890716582	1
ccg	ccg	0.0001890716582	1
cgc	cgc	0.0001890716582	1
gtc	gtc	0.0001890716582	1
tcc	tcc	0.0001890716582	1
tat	tat	0.0001890716582	1
; Host name	jolitorax
; Job started	2013-09-30.083607
; Job done	2013-09-30.083608
; Seconds	1.77
;	user	1.77
;	system	0.1
;	cuser	0
;	csystem	0