; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Drosophila_melanogaster/genome/Drosophila_melanogaster_stop_codons.wc -o $RSAT/public_html/data/genomes/Drosophila_melanogaster/genome/Drosophila_melanogaster_stop_codon_frequencies.tab
; 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/Drosophila_melanogaster/genome/Drosophila_melanogaster_stop_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Drosophila_melanogaster/genome/Drosophila_melanogaster_stop_codon_frequencies.tab
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	21313
; Sum of sequence lengths      	63939
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	21313
; total oligo occurrences      	21313
; 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	0.4101252756534	8741
tag	tag	0.3373997090977	7191
tga	tga	0.2511612630789	5353
aga	aga	0.0003284380425	7
cag	cag	0.0002815183222	6
gga	gga	0.0002345986018	5
atg	atg	0.0001876788814	4
agg	agg	0.0001407591611	3
gaa	gaa	0.0000469197204	1
tgt	tgt	0.0000469197204	1
gag	gag	0.0000469197204	1
; Host name	n95
; Job started	2017-04-15.082942
; Job done	2017-04-15.082943
; Seconds	0.58
;	user	0.58
;	system	0.03
;	cuser	0
;	csystem	0