; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_8_0416_ensembl_72_GCA_000304835.1/genome/Escherichia_coli_8_0416_ensembl_72_GCA_000304835.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_8_0416_ensembl_72_GCA_000304835.1/genome/Escherichia_coli_8_0416_ensembl_72_GCA_000304835.1_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_8_0416_ensembl_72_GCA_000304835.1/genome/Escherichia_coli_8_0416_ensembl_72_GCA_000304835.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_8_0416_ensembl_72_GCA_000304835.1/genome/Escherichia_coli_8_0416_ensembl_72_GCA_000304835.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	5581
; Sum of sequence lengths      	16743
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	5581
; total oligo occurrences      	5581
; 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	0.8330048378427	4649
gtg	gtg	0.1044615660276	583
ttg	ttg	0.0471241712955	263
att	att	0.0008958967927	5
gcc	gcc	0.0008958967927	5
agc	agc	0.0008958967927	5
ctg	ctg	0.0007167174342	4
atc	atc	0.0007167174342	4
gaa	gaa	0.0005375380756	3
gat	gat	0.0005375380756	3
aac	aac	0.0005375380756	3
acg	acg	0.0005375380756	3
tac	tac	0.0005375380756	3
gac	gac	0.0005375380756	3
gca	gca	0.0005375380756	3
acc	acc	0.0005375380756	3
aaa	aaa	0.0005375380756	3
ttt	ttt	0.0003583587171	2
tta	tta	0.0003583587171	2
aat	aat	0.0003583587171	2
cgt	cgt	0.0003583587171	2
tgg	tgg	0.0003583587171	2
act	act	0.0003583587171	2
ctc	ctc	0.0003583587171	2
cct	cct	0.0003583587171	2
aga	aga	0.0003583587171	2
ata	ata	0.0003583587171	2
cgc	cgc	0.0001791793585	1
gcg	gcg	0.0001791793585	1
caa	caa	0.0001791793585	1
tgc	tgc	0.0001791793585	1
aca	aca	0.0001791793585	1
ccc	ccc	0.0001791793585	1
ggc	ggc	0.0001791793585	1
ggg	ggg	0.0001791793585	1
ccg	ccg	0.0001791793585	1
gtc	gtc	0.0001791793585	1
tcc	tcc	0.0001791793585	1
cgg	cgg	0.0001791793585	1
gga	gga	0.0001791793585	1
gtt	gtt	0.0001791793585	1
cac	cac	0.0001791793585	1
agt	agt	0.0001791793585	1
; Host name	jolitorax
; Job started	2013-09-30.052503
; Job done	2013-09-30.052504
; Seconds	1.79
;	user	1.79
;	system	0.12
;	cuser	0
;	csystem	0