; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_ec1865_ensembl_72_GCA_000303395.1/genome/Escherichia_coli_ec1865_ensembl_72_GCA_000303395.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_ec1865_ensembl_72_GCA_000303395.1/genome/Escherichia_coli_ec1865_ensembl_72_GCA_000303395.1_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_ec1865_ensembl_72_GCA_000303395.1/genome/Escherichia_coli_ec1865_ensembl_72_GCA_000303395.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_ec1865_ensembl_72_GCA_000303395.1/genome/Escherichia_coli_ec1865_ensembl_72_GCA_000303395.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	4291
; Sum of sequence lengths      	12873
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	4291
; total oligo occurrences      	4291
; 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	0.7960848287113	3416
gtg	gtg	0.1265439291540	543
ttg	ttg	0.0386856210674	166
cag	cag	0.0023304591004	10
ctg	ctg	0.0020974131904	9
gcg	gcg	0.0018643672804	8
ggc	ggc	0.0018643672804	8
tac	tac	0.0016313213703	7
gac	gac	0.0016313213703	7
gca	gca	0.0016313213703	7
ttt	ttt	0.0013982754603	6
aaa	aaa	0.0013982754603	6
tcc	tcc	0.0013982754603	6
cgc	cgc	0.0011652295502	5
acg	acg	0.0011652295502	5
ccg	ccg	0.0011652295502	5
gag	gag	0.0011652295502	5
ttc	ttc	0.0009321836402	4
cgt	cgt	0.0009321836402	4
aca	aca	0.0009321836402	4
gtc	gtc	0.0009321836402	4
cgg	cgg	0.0009321836402	4
gaa	gaa	0.0006991377301	3
att	att	0.0006991377301	3
caa	caa	0.0006991377301	3
acc	acc	0.0006991377301	3
cct	cct	0.0006991377301	3
gat	gat	0.0004660918201	2
aac	aac	0.0004660918201	2
aat	aat	0.0004660918201	2
ccc	ccc	0.0004660918201	2
tgg	tgg	0.0004660918201	2
ggt	ggt	0.0004660918201	2
cat	cat	0.0004660918201	2
tca	tca	0.0004660918201	2
gga	gga	0.0004660918201	2
cac	cac	0.0004660918201	2
agc	agc	0.0004660918201	2
atc	atc	0.0004660918201	2
agt	agt	0.0004660918201	2
tgt	tgt	0.0002330459100	1
tta	tta	0.0002330459100	1
tct	tct	0.0002330459100	1
ggg	ggg	0.0002330459100	1
tcg	tcg	0.0002330459100	1
act	act	0.0002330459100	1
ctc	ctc	0.0002330459100	1
ata	ata	0.0002330459100	1
gtt	gtt	0.0002330459100	1
gcc	gcc	0.0002330459100	1
tat	tat	0.0002330459100	1
; Host name	jolitorax
; Job started	2013-09-30.232410
; Job done	2013-09-30.232411
; Seconds	1.68
;	user	1.68
;	system	0.12
;	cuser	0
;	csystem	0.01