; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_ec1869_ensembl_72_GCA_000303335.1/genome/Escherichia_coli_ec1869_ensembl_72_GCA_000303335.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_ec1869_ensembl_72_GCA_000303335.1/genome/Escherichia_coli_ec1869_ensembl_72_GCA_000303335.1_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_ec1869_ensembl_72_GCA_000303335.1/genome/Escherichia_coli_ec1869_ensembl_72_GCA_000303335.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_ec1869_ensembl_72_GCA_000303335.1/genome/Escherichia_coli_ec1869_ensembl_72_GCA_000303335.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	2830
; Sum of sequence lengths      	8490
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	2830
; total oligo occurrences      	2830
; 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	0.8031802120141	2273
gtg	gtg	0.1300353356890	368
ttg	ttg	0.0371024734982	105
ctg	ctg	0.0045936395760	13
gat	gat	0.0024734982332	7
cag	cag	0.0024734982332	7
tac	tac	0.0021201413428	6
ctt	ctt	0.0014134275618	4
att	att	0.0014134275618	4
ttt	ttt	0.0010600706714	3
ggc	ggc	0.0010600706714	3
cat	cat	0.0010600706714	3
gcc	gcc	0.0010600706714	3
atc	atc	0.0010600706714	3
gaa	gaa	0.0007067137809	2
gcg	gcg	0.0007067137809	2
ggg	ggg	0.0007067137809	2
ggt	ggt	0.0007067137809	2
aaa	aaa	0.0007067137809	2
ttc	ttc	0.0003533568905	1
tgt	tgt	0.0003533568905	1
cca	cca	0.0003533568905	1
tta	tta	0.0003533568905	1
aat	aat	0.0003533568905	1
acg	acg	0.0003533568905	1
cgt	cgt	0.0003533568905	1
tgc	tgc	0.0003533568905	1
gac	gac	0.0003533568905	1
aca	aca	0.0003533568905	1
ccg	ccg	0.0003533568905	1
gca	gca	0.0003533568905	1
tcg	tcg	0.0003533568905	1
acc	acc	0.0003533568905	1
tcc	tcc	0.0003533568905	1
cct	cct	0.0003533568905	1
gga	gga	0.0003533568905	1
agc	agc	0.0003533568905	1
; Host name	jolitorax
; Job started	2013-09-30.234644
; Job done	2013-09-30.234644
; Seconds	1.52
;	user	1.52
;	system	0.09
;	cuser	0
;	csystem	0