; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_90_0039_ensembl_72_GCA_000316405.1/genome/Escherichia_coli_90_0039_ensembl_72_GCA_000316405.1_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_90_0039_ensembl_72_GCA_000316405.1/genome/Escherichia_coli_90_0039_ensembl_72_GCA_000316405.1_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_90_0039_ensembl_72_GCA_000316405.1/genome/Escherichia_coli_90_0039_ensembl_72_GCA_000316405.1_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_90_0039_ensembl_72_GCA_000316405.1/genome/Escherichia_coli_90_0039_ensembl_72_GCA_000316405.1_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	2508
; Sum of sequence lengths      	7524
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	2508
; total oligo occurrences      	2508
; 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	0.7942583732057	1992
gtg	gtg	0.1232057416268	309
ttg	ttg	0.0434609250399	109
gaa	gaa	0.0031897926635	8
gag	gag	0.0031897926635	8
ctg	ctg	0.0027910685805	7
gcg	gcg	0.0023923444976	6
aaa	aaa	0.0019936204147	5
atc	atc	0.0019936204147	5
cgc	cgc	0.0015948963317	4
gca	gca	0.0015948963317	4
ggt	ggt	0.0015948963317	4
att	att	0.0011961722488	3
gat	gat	0.0011961722488	3
acg	acg	0.0011961722488	3
acc	acc	0.0011961722488	3
cat	cat	0.0011961722488	3
cgg	cgg	0.0011961722488	3
aat	aat	0.0007974481659	2
gac	gac	0.0007974481659	2
aca	aca	0.0007974481659	2
ggc	ggc	0.0007974481659	2
cag	cag	0.0007974481659	2
tcc	tcc	0.0007974481659	2
agc	agc	0.0007974481659	2
gcc	gcc	0.0007974481659	2
tgt	tgt	0.0003987240829	1
tta	tta	0.0003987240829	1
gct	gct	0.0003987240829	1
caa	caa	0.0003987240829	1
tgc	tgc	0.0003987240829	1
ctc	ctc	0.0003987240829	1
aag	aag	0.0003987240829	1
aga	aga	0.0003987240829	1
tca	tca	0.0003987240829	1
ata	ata	0.0003987240829	1
gtt	gtt	0.0003987240829	1
agt	agt	0.0003987240829	1
tat	tat	0.0003987240829	1
; Host name	jolitorax
; Job started	2013-09-30.060210
; Job done	2013-09-30.060211
; Seconds	1.59
;	user	1.59
;	system	0.08
;	cuser	0
;	csystem	0