; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_ec4422_ensembl_72_GCA_000267365.1/genome/Escherichia_coli_ec4422_ensembl_72_GCA_000267365.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_ec4422_ensembl_72_GCA_000267365.1/genome/Escherichia_coli_ec4422_ensembl_72_GCA_000267365.1_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_ec4422_ensembl_72_GCA_000267365.1/genome/Escherichia_coli_ec4422_ensembl_72_GCA_000267365.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_ec4422_ensembl_72_GCA_000267365.1/genome/Escherichia_coli_ec4422_ensembl_72_GCA_000267365.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	3176
; Sum of sequence lengths      	9528
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	3176
; total oligo occurrences      	3176
; 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	0.8098236775819	2572
gtg	gtg	0.1120906801008	356
ttg	ttg	0.0437657430730	139
gcg	gcg	0.0025188916877	8
gat	gat	0.0018891687657	6
aat	aat	0.0018891687657	6
ggt	ggt	0.0018891687657	6
gcc	gcc	0.0018891687657	6
gac	gac	0.0015743073048	5
gaa	gaa	0.0012594458438	4
ttt	ttt	0.0012594458438	4
cgt	cgt	0.0012594458438	4
cag	cag	0.0012594458438	4
ctg	ctg	0.0009445843829	3
tct	tct	0.0009445843829	3
caa	caa	0.0009445843829	3
acg	acg	0.0009445843829	3
gca	gca	0.0009445843829	3
aaa	aaa	0.0009445843829	3
atc	atc	0.0009445843829	3
att	att	0.0006297229219	2
cgc	cgc	0.0006297229219	2
tgc	tgc	0.0006297229219	2
ggc	ggc	0.0006297229219	2
ggg	ggg	0.0006297229219	2
ccg	ccg	0.0006297229219	2
gtc	gtc	0.0006297229219	2
aag	aag	0.0006297229219	2
tcc	tcc	0.0006297229219	2
cct	cct	0.0006297229219	2
gtt	gtt	0.0006297229219	2
agg	agg	0.0003148614610	1
gct	gct	0.0003148614610	1
tac	tac	0.0003148614610	1
ccc	ccc	0.0003148614610	1
acc	acc	0.0003148614610	1
gag	gag	0.0003148614610	1
cat	cat	0.0003148614610	1
act	act	0.0003148614610	1
tca	tca	0.0003148614610	1
cgg	cgg	0.0003148614610	1
ata	ata	0.0003148614610	1
agc	agc	0.0003148614610	1
cac	cac	0.0003148614610	1
; Host name	jolitorax
; Job started	2013-10-01.004308
; Job done	2013-10-01.004309
; Seconds	1.52
;	user	1.52
;	system	0.1
;	cuser	0
;	csystem	0