; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_K_12_substr__MG1655_uid57779/genome/Escherichia_coli_K_12_substr__MG1655_uid57779_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_K_12_substr__MG1655_uid57779/genome/Escherichia_coli_K_12_substr__MG1655_uid57779_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_K_12_substr__MG1655_uid57779/genome/Escherichia_coli_K_12_substr__MG1655_uid57779_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_K_12_substr__MG1655_uid57779/genome/Escherichia_coli_K_12_substr__MG1655_uid57779_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	4319
; Sum of sequence lengths      	12957
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	4319
; total oligo occurrences      	4319
; 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	0.8893262329243	3841
gtg	gtg	0.0759435054411	328
ttg	ttg	0.0180597360500	78
att	att	0.0013892104654	6
ctg	ctg	0.0011576753878	5
gat	gat	0.0011576753878	5
tat	tat	0.0006946052327	3
tac	tac	0.0006946052327	3
aac	aac	0.0006946052327	3
acc	acc	0.0006946052327	3
tcc	tcc	0.0004630701551	2
cca	cca	0.0004630701551	2
tta	tta	0.0004630701551	2
ata	ata	0.0004630701551	2
agc	agc	0.0004630701551	2
ggc	ggc	0.0004630701551	2
atc	atc	0.0004630701551	2
gag	gag	0.0004630701551	2
aga	aga	0.0004630701551	2
gcc	gcc	0.0004630701551	2
aag	aag	0.0002315350776	1
aat	aat	0.0002315350776	1
cta	cta	0.0002315350776	1
cat	cat	0.0002315350776	1
act	act	0.0002315350776	1
ttc	ttc	0.0002315350776	1
gac	gac	0.0002315350776	1
ggt	ggt	0.0002315350776	1
gta	gta	0.0002315350776	1
tgg	tgg	0.0002315350776	1
cag	cag	0.0002315350776	1
tgt	tgt	0.0002315350776	1
gca	gca	0.0002315350776	1
cgc	cgc	0.0002315350776	1
cgt	cgt	0.0002315350776	1
gtt	gtt	0.0002315350776	1
ttt	ttt	0.0002315350776	1
caa	caa	0.0002315350776	1
ccg	ccg	0.0002315350776	1
gaa	gaa	0.0002315350776	1
gga	gga	0.0002315350776	1
gtc	gtc	0.0002315350776	1
gcg	gcg	0.0002315350776	1
tgc	tgc	0.0002315350776	1
; Host name	rsat-tagc
; Job started	2014-06-19.082810
; Job done	2014-06-19.082810
; Seconds	0.31
;	user	0.31
;	system	0.02
;	cuser	0
;	csystem	0