; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Escherichia_coli_b093_ensembl_72_GCA_000242015.1/genome/Escherichia_coli_b093_ensembl_72_GCA_000242015.1_stop_codons.wc -o $RSAT/public_html/data/genomes/Escherichia_coli_b093_ensembl_72_GCA_000242015.1/genome/Escherichia_coli_b093_ensembl_72_GCA_000242015.1_stop_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_b093_ensembl_72_GCA_000242015.1/genome/Escherichia_coli_b093_ensembl_72_GCA_000242015.1_stop_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Escherichia_coli_b093_ensembl_72_GCA_000242015.1/genome/Escherichia_coli_b093_ensembl_72_GCA_000242015.1_stop_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	1487
; Sum of sequence lengths      	4461
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	1487
; total oligo occurrences      	1487
; 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
taa	taa	0.6099529253531	907
tga	tga	0.2979152656355	443
tag	tag	0.0706119704102	105
gtg	gtg	0.0026899798252	4
cag	cag	0.0020174848689	3
tgg	tgg	0.0013449899126	2
ccg	ccg	0.0013449899126	2
tcg	tcg	0.0013449899126	2
ttc	ttc	0.0006724949563	1
ggg	ggg	0.0006724949563	1
agg	agg	0.0006724949563	1
ctt	ctt	0.0006724949563	1
ctg	ctg	0.0006724949563	1
ttt	ttt	0.0006724949563	1
gat	gat	0.0006724949563	1
cgc	cgc	0.0006724949563	1
ggt	ggt	0.0006724949563	1
aaa	aaa	0.0006724949563	1
aag	aag	0.0006724949563	1
cct	cct	0.0006724949563	1
acg	acg	0.0006724949563	1
cgt	cgt	0.0006724949563	1
tca	tca	0.0006724949563	1
cgg	cgg	0.0006724949563	1
ccc	ccc	0.0006724949563	1
aca	aca	0.0006724949563	1
agt	agt	0.0006724949563	1
; Host name	jolitorax
; Job started	2013-09-30.094254
; Job done	2013-09-30.094255
; Seconds	1.24
;	user	1.24
;	system	0.11
;	cuser	0
;	csystem	0