; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_e101_ensembl_72_GCA_000241995.1/genome/Escherichia_coli_e101_ensembl_72_GCA_000241995.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_e101_ensembl_72_GCA_000241995.1/genome/Escherichia_coli_e101_ensembl_72_GCA_000241995.1_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_e101_ensembl_72_GCA_000241995.1/genome/Escherichia_coli_e101_ensembl_72_GCA_000241995.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_e101_ensembl_72_GCA_000241995.1/genome/Escherichia_coli_e101_ensembl_72_GCA_000241995.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	4915
; Sum of sequence lengths      	14745
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	4915
; total oligo occurrences      	4915
; 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	0.8970498474059	4409
gtg	gtg	0.0756866734486	372
ttg	ttg	0.0154628687691	76
ggc	ggc	0.0008138351984	4
cag	cag	0.0008138351984	4
gtt	gtt	0.0008138351984	4
ctg	ctg	0.0006103763988	3
tac	tac	0.0006103763988	3
ggt	ggt	0.0006103763988	3
tcg	tcg	0.0006103763988	3
cgg	cgg	0.0006103763988	3
tta	tta	0.0004069175992	2
cgt	cgt	0.0004069175992	2
cta	cta	0.0004069175992	2
aca	aca	0.0004069175992	2
aaa	aaa	0.0004069175992	2
agc	agc	0.0004069175992	2
tat	tat	0.0004069175992	2
ttc	ttc	0.0002034587996	1
gaa	gaa	0.0002034587996	1
agg	agg	0.0002034587996	1
att	att	0.0002034587996	1
ctt	ctt	0.0002034587996	1
gat	gat	0.0002034587996	1
cgc	cgc	0.0002034587996	1
gcg	gcg	0.0002034587996	1
aat	aat	0.0002034587996	1
acg	acg	0.0002034587996	1
tgg	tgg	0.0002034587996	1
gca	gca	0.0002034587996	1
aag	aag	0.0002034587996	1
tcc	tcc	0.0002034587996	1
gga	gga	0.0002034587996	1
gcc	gcc	0.0002034587996	1
atc	atc	0.0002034587996	1
; Host name	jolitorax
; Job started	2013-09-30.204050
; Job done	2013-09-30.204051
; Seconds	1.76
;	user	1.76
;	system	0.07
;	cuser	0
;	csystem	0