; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Mus_musculus_NCBIM37/genome/Mus_musculus_NCBIM37_start_codons.wc -o $RSAT/public_html/data/genomes/Mus_musculus_NCBIM37/genome/Mus_musculus_NCBIM37_start_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/Mus_musculus_NCBIM37/genome/Mus_musculus_NCBIM37_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Mus_musculus_NCBIM37/genome/Mus_musculus_NCBIM37_start_codon_frequencies.tab
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	56790
; Sum of sequence lengths      	170370
; discarded residues           		 (other letters than ACGT)
; discarded occurrences        		 (contain discarded residues)
; nb possible positions        	56790
; total oligo occurrences      	56790
; 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	0.5118506779363	29068
gag	gag	0.0141926395492	806
ctg	ctg	0.0131713329812	748
cag	cag	0.0128543757704	730
ggg	ggg	0.0126958971650	721
ggc	ggc	0.0124493748899	707
gcc	gcc	0.0118506779363	673
gtg	gtg	0.0112343722486	638
ccc	ccc	0.0109174150379	620
cct	cct	0.0108645888361	617
agc	agc	0.0105828490932	601
gga	gga	0.0104067617538	591
tgg	tgg	0.0103539355520	588
agg	agg	0.0103539355520	588
aga	aga	0.0102658918824	583
gct	gct	0.0101954569466	579
ctc	ctc	0.0097024123965	551
gaa	gaa	0.0096495861948	548
cca	cca	0.0095967599930	545
tcc	tcc	0.0095263250572	541
aag	aag	0.0093150202500	529
tct	tct	0.0092093678465	523
ctt	ctt	0.0091213241768	518
aaa	aaa	0.0090332805071	513
gca	gca	0.0088571931678	503
tga	tga	0.0086458883606	491
ttt	ttt	0.0086282796267	490
cgg	cgg	0.0085226272231	484
tgc	tgc	0.0083641486177	475
ttc	ttc	0.0082761049481	470
tgt	tgt	0.0082761049481	470
gcg	gcg	0.0076774079944	436
gac	gac	0.0076069730586	432
ggt	ggt	0.0072900158479	414
ccg	ccg	0.0071315372425	405
tca	tca	0.0071139285085	404
acc	acc	0.0070611023067	401
aca	aca	0.0069202324353	393
cac	cac	0.0068674062335	390
gtc	gtc	0.0067969712978	386
cat	cat	0.0065152315549	370
ttg	ttg	0.0064447966191	366
cgc	cgc	0.0064447966191	366
agt	agt	0.0064271878852	365
gtt	gtt	0.0063039267477	358
caa	caa	0.0061982743441	352
gat	gat	0.0061806656101	351
act	act	0.0056171861243	319
atc	atc	0.0054234900511	308
aac	aac	0.0053002289135	301
att	att	0.0051241415742	291
cta	cta	0.0047543581616	270
tta	tta	0.0047543581616	270
gta	gta	0.0044197922169	251
ata	ata	0.0043845747491	249
aat	aat	0.0043669660151	248
taa	taa	0.0042437048776	241
tag	tag	0.0039795738686	226
tac	tac	0.0037330515936	212
tat	tat	0.0037154428597	211
cga	cga	0.0034865293185	198
acg	acg	0.0031167459060	177
tcg	tcg	0.0029934847684	170
cgt	cgt	0.0026413100898	150
; Host name	Jairs-MacBook-Air.local
; Job started	2018-03-19.162335
; Job done	2018-03-19.162336
; Seconds	0.83
;	user	0.83
;	system	0.03
;	cuser	0
;	csystem	0