; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_3006_ensembl_72_GCA_000304135.1/genome/Escherichia_coli_3006_ensembl_72_GCA_000304135.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_3006_ensembl_72_GCA_000304135.1/genome/Escherichia_coli_3006_ensembl_72_GCA_000304135.1_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_3006_ensembl_72_GCA_000304135.1/genome/Escherichia_coli_3006_ensembl_72_GCA_000304135.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_3006_ensembl_72_GCA_000304135.1/genome/Escherichia_coli_3006_ensembl_72_GCA_000304135.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	3882
; Sum of sequence lengths      	11646
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	3882
; total oligo occurrences      	3882
; 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	0.8191653786708	3180
gtg	gtg	0.1159196290572	450
ttg	ttg	0.0427614631633	166
gat	gat	0.0020607934055	8
ctg	ctg	0.0018031942298	7
gca	gca	0.0018031942298	7
gtt	gtt	0.0018031942298	7
aat	aat	0.0012879958784	5
ttc	ttc	0.0010303967027	4
ggg	ggg	0.0010303967027	4
ccg	ccg	0.0010303967027	4
ggt	ggt	0.0010303967027	4
gcg	gcg	0.0007727975270	3
cgt	cgt	0.0007727975270	3
gac	gac	0.0007727975270	3
att	att	0.0005151983514	2
aca	aca	0.0005151983514	2
cag	cag	0.0005151983514	2
gag	gag	0.0005151983514	2
gtc	gtc	0.0005151983514	2
tgt	tgt	0.0002575991757	1
ctt	ctt	0.0002575991757	1
tta	tta	0.0002575991757	1
aac	aac	0.0002575991757	1
tgg	tgg	0.0002575991757	1
tcg	tcg	0.0002575991757	1
acc	acc	0.0002575991757	1
cat	cat	0.0002575991757	1
tcc	tcc	0.0002575991757	1
ctc	ctc	0.0002575991757	1
aga	aga	0.0002575991757	1
tca	tca	0.0002575991757	1
cgg	cgg	0.0002575991757	1
ata	ata	0.0002575991757	1
gga	gga	0.0002575991757	1
gcc	gcc	0.0002575991757	1
agt	agt	0.0002575991757	1
; Host name	jolitorax
; Job started	2013-09-30.021726
; Job done	2013-09-30.021727
; Seconds	1.62
;	user	1.62
;	system	0.05
;	cuser	0
;	csystem	0