; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_96_0107_ensembl_72_GCA_000316765.1/genome/Escherichia_coli_96_0107_ensembl_72_GCA_000316765.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_96_0107_ensembl_72_GCA_000316765.1/genome/Escherichia_coli_96_0107_ensembl_72_GCA_000316765.1_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_96_0107_ensembl_72_GCA_000316765.1/genome/Escherichia_coli_96_0107_ensembl_72_GCA_000316765.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_96_0107_ensembl_72_GCA_000316765.1/genome/Escherichia_coli_96_0107_ensembl_72_GCA_000316765.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	2886
; Sum of sequence lengths      	8658
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	2886
; total oligo occurrences      	2886
; 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	0.8128898128898	2346
gtg	gtg	0.1129591129591	326
ttg	ttg	0.0405405405405	117
gcg	gcg	0.0027720027720	8
ctg	ctg	0.0017325017325	5
tac	tac	0.0017325017325	5
gca	gca	0.0017325017325	5
cag	cag	0.0017325017325	5
gaa	gaa	0.0013860013860	4
ctt	ctt	0.0013860013860	4
gat	gat	0.0013860013860	4
acg	acg	0.0013860013860	4
ggt	ggt	0.0013860013860	4
gtt	gtt	0.0013860013860	4
gcc	gcc	0.0013860013860	4
cgt	cgt	0.0010395010395	3
gag	gag	0.0010395010395	3
aaa	aaa	0.0010395010395	3
aag	aag	0.0010395010395	3
cgg	cgg	0.0010395010395	3
att	att	0.0006930006930	2
gac	gac	0.0006930006930	2
ccg	ccg	0.0006930006930	2
ata	ata	0.0006930006930	2
cac	cac	0.0006930006930	2
atc	atc	0.0006930006930	2
ttc	ttc	0.0003465003465	1
ttt	ttt	0.0003465003465	1
cgc	cgc	0.0003465003465	1
gct	gct	0.0003465003465	1
aat	aat	0.0003465003465	1
gta	gta	0.0003465003465	1
aca	aca	0.0003465003465	1
ggg	ggg	0.0003465003465	1
acc	acc	0.0003465003465	1
cat	cat	0.0003465003465	1
tcc	tcc	0.0003465003465	1
gga	gga	0.0003465003465	1
tat	tat	0.0003465003465	1
agt	agt	0.0003465003465	1
; Host name	jolitorax
; Job started	2013-09-30.070914
; Job done	2013-09-30.070914
; Seconds	1.47
;	user	1.47
;	system	0.06
;	cuser	0
;	csystem	0