; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_dec2e_ensembl_72_GCA_000249235.2/genome/Escherichia_coli_dec2e_ensembl_72_GCA_000249235.2_start_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_dec2e_ensembl_72_GCA_000249235.2/genome/Escherichia_coli_dec2e_ensembl_72_GCA_000249235.2_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_dec2e_ensembl_72_GCA_000249235.2/genome/Escherichia_coli_dec2e_ensembl_72_GCA_000249235.2_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_dec2e_ensembl_72_GCA_000249235.2/genome/Escherichia_coli_dec2e_ensembl_72_GCA_000249235.2_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	5288
; Sum of sequence lengths      	15864
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	5288
; total oligo occurrences      	5288
; 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	0.8409606656581	4447
gtg	gtg	0.1119515885023	592
ttg	ttg	0.0442511346445	234
aaa	aaa	0.0005673222390	3
acc	acc	0.0003782148260	2
gaa	gaa	0.0001891074130	1
ggc	ggc	0.0001891074130	1
ggg	ggg	0.0001891074130	1
acg	acg	0.0001891074130	1
cag	cag	0.0001891074130	1
tca	tca	0.0001891074130	1
gag	gag	0.0001891074130	1
gtt	gtt	0.0001891074130	1
gtc	gtc	0.0001891074130	1
atc	atc	0.0001891074130	1
; Host name	jolitorax
; Job started	2013-09-30.161754
; Job done	2013-09-30.161755
; Seconds	1.83
;	user	1.83
;	system	0.1
;	cuser	0
;	csystem	0.01