; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_83972_ensembl_72_GCA_000159295.1/genome/Escherichia_coli_83972_ensembl_72_GCA_000159295.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_83972_ensembl_72_GCA_000159295.1/genome/Escherichia_coli_83972_ensembl_72_GCA_000159295.1_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_83972_ensembl_72_GCA_000159295.1/genome/Escherichia_coli_83972_ensembl_72_GCA_000159295.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_83972_ensembl_72_GCA_000159295.1/genome/Escherichia_coli_83972_ensembl_72_GCA_000159295.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	5255
; Sum of sequence lengths      	15765
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	5255
; total oligo occurrences      	5255
; 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	0.8506184586108	4470
gtg	gtg	0.0892483349191	469
ttg	ttg	0.0430066603235	226
ggc	ggc	0.0015223596575	8
ctg	ctg	0.0011417697431	6
att	att	0.0009514747859	5
gca	gca	0.0009514747859	5
ggg	ggg	0.0007611798287	4
gcc	gcc	0.0007611798287	4
gcg	gcg	0.0005708848716	3
cac	cac	0.0005708848716	3
gaa	gaa	0.0003805899144	2
ctt	ctt	0.0003805899144	2
agg	agg	0.0003805899144	2
cgc	cgc	0.0003805899144	2
gct	gct	0.0003805899144	2
aac	aac	0.0003805899144	2
cgt	cgt	0.0003805899144	2
gta	gta	0.0003805899144	2
gac	gac	0.0003805899144	2
tcg	tcg	0.0003805899144	2
cat	cat	0.0003805899144	2
aaa	aaa	0.0003805899144	2
gtc	gtc	0.0003805899144	2
aag	aag	0.0003805899144	2
tca	tca	0.0003805899144	2
tgt	tgt	0.0001902949572	1
ttt	ttt	0.0001902949572	1
gat	gat	0.0001902949572	1
tta	tta	0.0001902949572	1
tct	tct	0.0001902949572	1
aat	aat	0.0001902949572	1
acg	acg	0.0001902949572	1
tgc	tgc	0.0001902949572	1
cga	cga	0.0001902949572	1
ccc	ccc	0.0001902949572	1
ccg	ccg	0.0001902949572	1
ggt	ggt	0.0001902949572	1
acc	acc	0.0001902949572	1
gag	gag	0.0001902949572	1
ctc	ctc	0.0001902949572	1
tcc	tcc	0.0001902949572	1
act	act	0.0001902949572	1
cct	cct	0.0001902949572	1
aga	aga	0.0001902949572	1
gtt	gtt	0.0001902949572	1
atc	atc	0.0001902949572	1
agt	agt	0.0001902949572	1
; Host name	jolitorax
; Job started	2013-09-30.045251
; Job done	2013-09-30.045251
; Seconds	1.83
;	user	1.83
;	system	0.06
;	cuser	0
;	csystem	0