; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_e482_ensembl_72_GCA_000190835.1/genome/Escherichia_coli_e482_ensembl_72_GCA_000190835.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_e482_ensembl_72_GCA_000190835.1/genome/Escherichia_coli_e482_ensembl_72_GCA_000190835.1_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_e482_ensembl_72_GCA_000190835.1/genome/Escherichia_coli_e482_ensembl_72_GCA_000190835.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_e482_ensembl_72_GCA_000190835.1/genome/Escherichia_coli_e482_ensembl_72_GCA_000190835.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	4534
; Sum of sequence lengths      	13602
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	4534
; total oligo occurrences      	4534
; 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	0.8625937362153	3911
gtg	gtg	0.1005734450816	456
ttg	ttg	0.0310983678871	141
gaa	gaa	0.0008822232025	4
atc	atc	0.0006616674019	3
gca	gca	0.0004411116012	2
acg	acg	0.0004411116012	2
ggc	ggc	0.0002205558006	1
agg	agg	0.0002205558006	1
tgg	tgg	0.0002205558006	1
ccg	ccg	0.0002205558006	1
gat	gat	0.0002205558006	1
ggt	ggt	0.0002205558006	1
cag	cag	0.0002205558006	1
cat	cat	0.0002205558006	1
act	act	0.0002205558006	1
tcc	tcc	0.0002205558006	1
ctc	ctc	0.0002205558006	1
cct	cct	0.0002205558006	1
cgg	cgg	0.0002205558006	1
gac	gac	0.0002205558006	1
cac	cac	0.0002205558006	1
; Host name	jolitorax
; Job started	2013-09-30.212716
; Job done	2013-09-30.212717
; Seconds	1.7
;	user	1.7
;	system	0.09
;	cuser	0
;	csystem	0