; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_10_0833_ensembl_72_GCA_000305415.1/genome/Escherichia_coli_10_0833_ensembl_72_GCA_000305415.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_10_0833_ensembl_72_GCA_000305415.1/genome/Escherichia_coli_10_0833_ensembl_72_GCA_000305415.1_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_10_0833_ensembl_72_GCA_000305415.1/genome/Escherichia_coli_10_0833_ensembl_72_GCA_000305415.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_10_0833_ensembl_72_GCA_000305415.1/genome/Escherichia_coli_10_0833_ensembl_72_GCA_000305415.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	3264
; Sum of sequence lengths      	9792
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	3264
; total oligo occurrences      	3264
; 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	0.8118872549020	2650
gtg	gtg	0.1200980392157	392
ttg	ttg	0.0404411764706	132
cag	cag	0.0021446078431	7
ctg	ctg	0.0015318627451	5
ggc	ggc	0.0015318627451	5
aaa	aaa	0.0015318627451	5
gat	gat	0.0012254901961	4
aat	aat	0.0012254901961	4
gac	gac	0.0012254901961	4
aca	aca	0.0012254901961	4
gcc	gcc	0.0012254901961	4
att	att	0.0009191176471	3
ggg	ggg	0.0009191176471	3
tca	tca	0.0009191176471	3
atc	atc	0.0009191176471	3
tat	tat	0.0009191176471	3
cgc	cgc	0.0006127450980	2
tgg	tgg	0.0006127450980	2
ccg	ccg	0.0006127450980	2
acc	acc	0.0006127450980	2
gtc	gtc	0.0006127450980	2
aag	aag	0.0006127450980	2
gtt	gtt	0.0006127450980	2
gaa	gaa	0.0003063725490	1
tgt	tgt	0.0003063725490	1
ctt	ctt	0.0003063725490	1
ttt	ttt	0.0003063725490	1
gct	gct	0.0003063725490	1
tta	tta	0.0003063725490	1
tct	tct	0.0003063725490	1
caa	caa	0.0003063725490	1
acg	acg	0.0003063725490	1
cgt	cgt	0.0003063725490	1
gta	gta	0.0003063725490	1
tgc	tgc	0.0003063725490	1
cga	cga	0.0003063725490	1
ccc	ccc	0.0003063725490	1
gca	gca	0.0003063725490	1
ggt	ggt	0.0003063725490	1
tcg	tcg	0.0003063725490	1
gag	gag	0.0003063725490	1
aga	aga	0.0003063725490	1
; Host name	jolitorax
; Job started	2013-09-30.011057
; Job done	2013-09-30.011058
; Seconds	1.49
;	user	1.49
;	system	0.09
;	cuser	0
;	csystem	0