; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_ec1849_ensembl_72_GCA_000303495.1/genome/Escherichia_coli_ec1849_ensembl_72_GCA_000303495.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_ec1849_ensembl_72_GCA_000303495.1/genome/Escherichia_coli_ec1849_ensembl_72_GCA_000303495.1_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_ec1849_ensembl_72_GCA_000303495.1/genome/Escherichia_coli_ec1849_ensembl_72_GCA_000303495.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_ec1849_ensembl_72_GCA_000303495.1/genome/Escherichia_coli_ec1849_ensembl_72_GCA_000303495.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	3671
; Sum of sequence lengths      	11013
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	3671
; total oligo occurrences      	3671
; 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	0.7951511849632	2919
gtg	gtg	0.1157722691365	425
ttg	ttg	0.0433124489240	159
ctg	ctg	0.0032688640697	12
cag	cag	0.0021792427132	8
gcc	gcc	0.0019068373740	7
gaa	gaa	0.0016344320349	6
att	att	0.0016344320349	6
ggg	ggg	0.0016344320349	6
ttt	ttt	0.0013620266957	5
gat	gat	0.0013620266957	5
ccg	ccg	0.0013620266957	5
gca	gca	0.0013620266957	5
ggt	ggt	0.0013620266957	5
cgg	cgg	0.0013620266957	5
atc	atc	0.0013620266957	5
aat	aat	0.0010896213566	4
caa	caa	0.0010896213566	4
gac	gac	0.0010896213566	4
aca	aca	0.0010896213566	4
ccc	ccc	0.0010896213566	4
ggc	ggc	0.0010896213566	4
aaa	aaa	0.0010896213566	4
gtc	gtc	0.0010896213566	4
tca	tca	0.0010896213566	4
gtt	gtt	0.0010896213566	4
ctt	ctt	0.0008172160174	3
tgg	tgg	0.0008172160174	3
tcc	tcc	0.0008172160174	3
aga	aga	0.0008172160174	3
ata	ata	0.0008172160174	3
tgt	tgt	0.0005448106783	2
agg	agg	0.0005448106783	2
gcg	gcg	0.0005448106783	2
tta	tta	0.0005448106783	2
gct	gct	0.0005448106783	2
tct	tct	0.0005448106783	2
acg	acg	0.0005448106783	2
acc	acc	0.0005448106783	2
cac	cac	0.0005448106783	2
agt	agt	0.0005448106783	2
aac	aac	0.0002724053391	1
cgt	cgt	0.0002724053391	1
tac	tac	0.0002724053391	1
tgc	tgc	0.0002724053391	1
cta	cta	0.0002724053391	1
cga	cga	0.0002724053391	1
tcg	tcg	0.0002724053391	1
gag	gag	0.0002724053391	1
cat	cat	0.0002724053391	1
act	act	0.0002724053391	1
aag	aag	0.0002724053391	1
gga	gga	0.0002724053391	1
tat	tat	0.0002724053391	1
; Host name	jolitorax
; Job started	2013-09-30.224217
; Job done	2013-09-30.224218
; Seconds	1.6
;	user	1.6
;	system	0.09
;	cuser	0
;	csystem	0