; oligo-analysis  -quick -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i /software/CC/bio/opt/rsat/rsa-tools//data/genomes/Podospora_anserina_DSM_980/genome/Podospora_anserina_DSM_980_start_codons.wc -o /software/CC/bio/opt/rsat/rsa-tools//data/genomes/Podospora_anserina_DSM_980/genome/Podospora_anserina_DSM_980_start_codon_frequencies
; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42. 
; Program version              	1.163
; Quick counting mode          
; Oligomer length              	3
; Input file                   	$RSAT/data/genomes/Podospora_anserina_DSM_980/genome/Podospora_anserina_DSM_980_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/data/genomes/Podospora_anserina_DSM_980/genome/Podospora_anserina_DSM_980_start_codon_frequencies
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	0
; Sum of sequence lengths      	0
; discarded residues           	NA (quick mode)	 (other letters than ACGT)
; discarded occurrences        	NA (quick mode)	 (contain discarded residues)
; nb possible positions        	NA (quick mode)
; total oligo occurrences      	52
; alphabet size                	4
; nb possible oligomers        	64
; oligomers tested for significance	0
; Threshold values
;	Parameter      	Lower	Upper
;	ms_P           	none	1
;	occ_P          	none	1
; Sequences:
;
; 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	0.3846153846154	20
aaa	aaa	0.0961538461538	5
ata	ata	0.0769230769231	4
tat	tat	0.0576923076923	3
tta	tta	0.0384615384615	2
aag	aag	0.0384615384615	2
cga	cga	0.0384615384615	2
ggg	ggg	0.0192307692308	1
att	att	0.0192307692308	1
ctg	ctg	0.0192307692308	1
cgc	cgc	0.0192307692308	1
ggt	ggt	0.0192307692308	1
gcg	gcg	0.0192307692308	1
aac	aac	0.0192307692308	1
caa	caa	0.0192307692308	1
acg	acg	0.0192307692308	1
aga	aga	0.0192307692308	1
gtg	gtg	0.0192307692308	1
ttg	ttg	0.0192307692308	1
gcc	gcc	0.0192307692308	1
atc	atc	0.0192307692308	1
; Host name	nic41
; Job started	2011_11_26.224743
; Job done	2011_11_26.224743
; Seconds	0.16