; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_fvec1412_ensembl_72_GCA_000163235.1/genome/Escherichia_coli_fvec1412_ensembl_72_GCA_000163235.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_fvec1412_ensembl_72_GCA_000163235.1/genome/Escherichia_coli_fvec1412_ensembl_72_GCA_000163235.1_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_fvec1412_ensembl_72_GCA_000163235.1/genome/Escherichia_coli_fvec1412_ensembl_72_GCA_000163235.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_fvec1412_ensembl_72_GCA_000163235.1/genome/Escherichia_coli_fvec1412_ensembl_72_GCA_000163235.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	4839
; Sum of sequence lengths      	14517
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	4839
; total oligo occurrences      	4839
; 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	0.8472824963836	4100
gtg	gtg	0.1056003306468	511
ttg	ttg	0.0328580285183	159
ctg	ctg	0.0072328993594	35
aac	aac	0.0008266170696	4
gaa	gaa	0.0006199628022	3
ggc	ggc	0.0006199628022	3
att	att	0.0004133085348	2
gcg	gcg	0.0004133085348	2
gta	gta	0.0004133085348	2
ttc	ttc	0.0002066542674	1
ccg	ccg	0.0002066542674	1
ttt	ttt	0.0002066542674	1
ggt	ggt	0.0002066542674	1
gag	gag	0.0002066542674	1
aaa	aaa	0.0002066542674	1
gtc	gtc	0.0002066542674	1
gct	gct	0.0002066542674	1
ctc	ctc	0.0002066542674	1
tac	tac	0.0002066542674	1
cta	cta	0.0002066542674	1
ata	ata	0.0002066542674	1
gac	gac	0.0002066542674	1
gtt	gtt	0.0002066542674	1
cac	cac	0.0002066542674	1
gcc	gcc	0.0002066542674	1
ccc	ccc	0.0002066542674	1
atc	atc	0.0002066542674	1
; Host name	jolitorax
; Job started	2013-10-01.034955
; Job done	2013-10-01.034956
; Seconds	1.91
;	user	1.91
;	system	0.07
;	cuser	0
;	csystem	0.01