; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_dec10a_ensembl_72_GCA_000249995.2/genome/Escherichia_coli_dec10a_ensembl_72_GCA_000249995.2_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_dec10a_ensembl_72_GCA_000249995.2/genome/Escherichia_coli_dec10a_ensembl_72_GCA_000249995.2_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_dec10a_ensembl_72_GCA_000249995.2/genome/Escherichia_coli_dec10a_ensembl_72_GCA_000249995.2_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_dec10a_ensembl_72_GCA_000249995.2/genome/Escherichia_coli_dec10a_ensembl_72_GCA_000249995.2_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	5706
; Sum of sequence lengths      	17118
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	5706
; total oligo occurrences      	5706
; 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	0.8284262180161	4727
gtg	gtg	0.1202243252716	686
ttg	ttg	0.0469681037504	268
gat	gat	0.0003505082369	2
aaa	aaa	0.0003505082369	2
tac	tac	0.0003505082369	2
agc	agc	0.0003505082369	2
atc	atc	0.0003505082369	2
ggc	ggc	0.0001752541185	1
att	att	0.0001752541185	1
tgg	tgg	0.0001752541185	1
ctg	ctg	0.0001752541185	1
cag	cag	0.0001752541185	1
tcg	tcg	0.0001752541185	1
acc	acc	0.0001752541185	1
gag	gag	0.0001752541185	1
gtc	gtc	0.0001752541185	1
act	act	0.0001752541185	1
tct	tct	0.0001752541185	1
caa	caa	0.0001752541185	1
cgg	cgg	0.0001752541185	1
tgc	tgc	0.0001752541185	1
gga	gga	0.0001752541185	1
; Host name	jolitorax
; Job started	2013-09-30.114019
; Job done	2013-09-30.114020
; Seconds	1.86
;	user	1.86
;	system	0.08
;	cuser	0
;	csystem	0