; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_93_001_ensembl_72_GCA_000267945.1/genome/Escherichia_coli_93_001_ensembl_72_GCA_000267945.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_93_001_ensembl_72_GCA_000267945.1/genome/Escherichia_coli_93_001_ensembl_72_GCA_000267945.1_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_93_001_ensembl_72_GCA_000267945.1/genome/Escherichia_coli_93_001_ensembl_72_GCA_000267945.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_93_001_ensembl_72_GCA_000267945.1/genome/Escherichia_coli_93_001_ensembl_72_GCA_000267945.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	3340
; Sum of sequence lengths      	10020
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	3340
; total oligo occurrences      	3340
; 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	0.7829341317365	2615
gtg	gtg	0.1179640718563	394
ttg	ttg	0.0491017964072	164
ctg	ctg	0.0053892215569	18
cag	cag	0.0047904191617	16
gaa	gaa	0.0029940119760	10
gat	gat	0.0020958083832	7
gcc	gcc	0.0020958083832	7
ggc	ggc	0.0017964071856	6
aaa	aaa	0.0017964071856	6
gac	gac	0.0014970059880	5
att	att	0.0011976047904	4
aat	aat	0.0011976047904	4
acg	acg	0.0011976047904	4
gag	gag	0.0011976047904	4
gtc	gtc	0.0011976047904	4
tcc	tcc	0.0011976047904	4
aac	aac	0.0008982035928	3
aca	aca	0.0008982035928	3
tgg	tgg	0.0008982035928	3
gca	gca	0.0008982035928	3
ccg	ccg	0.0008982035928	3
gtt	gtt	0.0008982035928	3
agt	agt	0.0008982035928	3
ttt	ttt	0.0005988023952	2
tta	tta	0.0005988023952	2
tct	tct	0.0005988023952	2
caa	caa	0.0005988023952	2
cgt	cgt	0.0005988023952	2
gta	gta	0.0005988023952	2
tgc	tgc	0.0005988023952	2
ccc	ccc	0.0005988023952	2
ggg	ggg	0.0005988023952	2
ggt	ggt	0.0005988023952	2
act	act	0.0005988023952	2
aag	aag	0.0005988023952	2
cgg	cgg	0.0005988023952	2
ata	ata	0.0005988023952	2
gga	gga	0.0005988023952	2
cac	cac	0.0005988023952	2
atc	atc	0.0005988023952	2
tgt	tgt	0.0002994011976	1
ctt	ctt	0.0002994011976	1
cgc	cgc	0.0002994011976	1
gcg	gcg	0.0002994011976	1
gct	gct	0.0002994011976	1
tac	tac	0.0002994011976	1
tcg	tcg	0.0002994011976	1
cat	cat	0.0002994011976	1
ctc	ctc	0.0002994011976	1
aga	aga	0.0002994011976	1
tca	tca	0.0002994011976	1
agc	agc	0.0002994011976	1
tat	tat	0.0002994011976	1
; Host name	jolitorax
; Job started	2013-09-30.062044
; Job done	2013-09-30.062044
; Seconds	1.52
;	user	1.52
;	system	0.08
;	cuser	0
;	csystem	0